Citrus Sinensis ID: 013856

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-----
Protein Sequence
MSTESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccEEEEccccccccccEEEEEEEEEEcccccccEEEEEEEccccEEEEEEEcccccccHHHHHHHHccccccEEEEEEEEEccccccccccccEEEEEEEEEEEEcccccccccHHccccHHHHHHHHHcccccccccccccccccEEEccccHHHHHHHHHHHHHHHHHHHHHHcccEEEEccccccccccccccccccccccccEEccccHHHHHHHHHHcccccEEEEEcEEccccccccccccHHHccEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHcccccccccccccHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHcccccHHHHHHccccccccccccccccEEEEEccccHHHcccEEEEEEEEEEEEEccccEEEEEEEEccEEEEEEEccccccccHHHHHHHcccccccEEEEEEEEEEcccccccccEEEEEEEEEEEEEEccccccccHHHHcccHHcccHHHHHHcccccccHHHHHHcHHHHcccHHHHHHHHHHHHHHHHHHHHHHHcccEEcccccEEcccccccccccEEEEccEEEEEccccHHHHHHHHHccccEEEEEEEEEccccccccccccEEEEEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHccccccccccccEEEEHHHHHHHHHHccccccccccccHHHHHHHHHHHHHH
Coil and Loop (DISEMBL)
msteseppkvqeevdsssQSISKKAAKKEAAKKAKEERRKEAEAAASAASALsieeegplannygdvplqelqsvndpqtgkwseavsgrewtevgalngslkdqevlirgrvhttrpvgnKLAFVVVRERVSTVQCLatvkpdsvsKEMVRFVRSLSNESIVDVIGvvsvpdveikgATQQVEVQIKKLYCVSraaktpitiedasrSEAEIEKASKegvqlprvnqdtrlnnrVIDIRTLANQGIFRIQSQVGNIFRQFLlsenfveihtpkliagsseggsavfrldykgqsaclaqspqlhkqmsicgdfgrvfetgpvfraedsythrhlceftglDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAkqypfeplkykpktlrLTFEEGVQMLKDagveidplgdlntesERKLGQLVLEK
Flexible Loop (DISEMBL)
msteseppkvqeevdsssqsiskKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEvgalngslkdqevlirgrvhttrpvgnkLAFVVVRERVSTvqclatvkpdsvskeMVRFVRslsnesivdvIGVVSVPDVEIKGATQQVEVQIKKlycvsraaktpitiedasrseAEIEkaskegvqlprvnqdtrlnnRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVakqypfeplkykpKTLRLTFEEGVQMLKDAGVeidplgdlnteserklgqlvlek
Low Complexity Region (SEG)
MSTESEPPKVQEEVDsssqsiskkaakkeaakkakeerrkeaeaaasaasalsieeeGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEsivdvigvvsvpdvEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK
Disordered region (IsUnstruct)
***************************************************************************************SGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPIT***************************TRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEI*********************
Disordered Region (DISOPRED)
**************************************************************NYGDVPLQ****************VSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP*******TQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEI********QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK
Disordered Region (DISEMBL)
****************************************************SIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIED************KEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK
Disordered Region (DISPRO)
********************************************************EGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRS***********VQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSTESEPPKVQEEVDSSSQSISxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	435	2.2.26 [Sep-21-2011]
P04802	557	Aspartate--tRNA ligase, c	yes	no	0.924	0.721	0.462	2e-89
Q75JQ1	576	Aspartate--tRNA ligase, c	yes	no	0.822	0.621	0.417	3e-82
O74407	580	Aspartate--tRNA ligase, c	yes	no	0.834	0.625	0.431	6e-81
Q922B2	501	Aspartate--tRNA ligase, c	yes	no	0.747	0.648	0.485	2e-80
P15178	501	Aspartate--tRNA ligase, c	yes	no	0.747	0.648	0.476	3e-79
Q03577	531	Aspartate--tRNA ligase, c	yes	no	0.914	0.749	0.424	6e-79
Q3SYZ4	501	Aspartate--tRNA ligase, c	yes	no	0.740	0.642	0.483	3e-78
Q5R9I5	501	Aspartate--tRNA ligase, c	yes	no	0.793	0.688	0.471	4e-78
P14868	501	Aspartate--tRNA ligase, c	yes	no	0.747	0.648	0.488	5e-78
Q559M9	569	Aspartate--tRNA ligase, c	no	no	0.786	0.601	0.362	2e-59

>sp|P04802|SYDC_YEAST Aspartate--tRNA ligase, cytoplasmic OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=DPS1 PE=1 SV=3

 Score =  329 bits (844), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 197/426 (46%), Positives = 264/426 (61%), Gaps = 24/426 (5%)

Query: 19  QSISKKAAKK----EAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQS 74
           + +SKKA KK    +  ++ KEER  + EA   A    +  E+    +NYG +PL  +QS
Sbjct: 27  KPLSKKALKKLQKEQEKQRKKEERALQLEAEREAREKKAAAEDTA-KDNYGKLPL--IQS 83

Query: 75  VNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVST 134
            +  +TG+       +    V        D+EVL R RVH TR  G  LAF+ +R++ S 
Sbjct: 84  RDSDRTGQ-------KRVKFVDLDEAKDSDKEVLFRARVHNTRQQGATLAFLTLRQQASL 136

Query: 135 VQCLATV-KPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVEVQIKKLYC 192
           +Q L    K  ++SK MV++  SL+ ESIV V G+V   D  IK AT Q +E+ I K+Y 
Sbjct: 137 IQGLVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKSATVQNLEIHITKIYT 196

Query: 193 VSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ 251
           +S   +  PI +EDASRSEAE E A      LP VN DTRL+ RVID+RT+ NQ IFRIQ
Sbjct: 197 ISETPEALPILLEDASRSEAEAEAAG-----LPVVNLDTRLDYRVIDLRTVTNQAIFRIQ 251

Query: 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSIC 311
           + V  +FR++L ++ F E+HTPKL+   SEGGS+VF + Y    A LAQSPQ +KQ  I 
Sbjct: 252 AGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKGKAYLAQSPQFNKQQLIV 311

Query: 312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNN 371
            DF RV+E GPVFRAE+S THRH+ EFTGLD+EM  ++HY EV+D +  LFV IF  L  
Sbjct: 312 ADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLSELFVFIFSELPK 371

Query: 372 VCKKELEAVAKQYPFEPLKYKP--KTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLG 429
               E+E V KQYP E  K     K +RLT++EG++ML+ AG EI    DL+TE+E+ LG
Sbjct: 372 RFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGDFEDLSTENEKFLG 431

Query: 430 QLVLEK 435
           +LV +K
Sbjct: 432 KLVRDK 437

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 2

>sp|Q75JQ1|SYDC1_DICDI Aspartate--tRNA ligase, cytoplasmic 1 OS=Dictyostelium discoideum GN=aspS1 PE=3 SV=1

 Score =  306 bits (783), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 170/407 (41%), Positives = 238/407 (58%), Gaps = 49/407 (12%)

Query: 62  NNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGN 121
           +N+G++P+ +            S+    REWT+V  L  SL  + VLIR R+ T+R  G 
Sbjct: 68  SNWGELPMNQ------------SKEKITREWTDVSQLTESLVGKSVLIRARLSTSRLQGA 115

Query: 122 KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQ 181
            L FV +R+ + TVQ +   K  S SK MV+FV  +  ESIVDV   V    V I+  TQ
Sbjct: 116 NLCFVQLRDGLYTVQAVV-AKGGSNSKSMVQFVGQVPKESIVDVQATVVSTSVPIESCTQ 174

Query: 182 Q-VEVQIKKLYCVSRAAKTPITIEDASRSE---------------------------AEI 213
           + VE+Q+   + VS++   P+ IED SR++                            ++
Sbjct: 175 KSVELQVSSFFIVSKSTLLPLQIEDLSRAQPLLDKQEDDLKQLEQLLQNTNLNEQEKTDL 234

Query: 214 EKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP 273
           EK   E ++   V+Q+ RL+NR +D+R  A+Q IFR+QS V  +FR+ LL E F+EIH+P
Sbjct: 235 EKKKSECIKFVNVSQEKRLDNRALDLRVPAHQSIFRLQSGVCTLFREQLLGEGFIEIHSP 294

Query: 274 KLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHR 333
           K+I+ +SE G++VF+L+Y    A LAQSPQL+KQM+IC DF +VFE GPVFRAE+S THR
Sbjct: 295 KIISAASESGASVFKLNYFNTHAYLAQSPQLYKQMAICADFNKVFEIGPVFRAENSNTHR 354

Query: 334 HLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP 393
           HL EF GLD+EM  K HY E +D +D L  +IF  L     KE+E+V  QYPFEP K+  
Sbjct: 355 HLTEFVGLDLEMTFKDHYHEALDTLDRLMTSIFRGLETRFAKEIESVNTQYPFEPFKFTY 414

Query: 394 KTLRLTFEEGVQMLKDAGVEIDP-----LGDLNTESERKLGQLVLEK 435
            + R TF+E   ML +     DP       D NT  E++LG+++ EK
Sbjct: 415 PSPRFTFDEAAAMLAELN---DPDYIVKDNDFNTRQEKRLGKIIKEK 458

Dictyostelium discoideum (taxid: 44689)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|O74407|SYDC_SCHPO Aspartate--tRNA ligase, cytoplasmic OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=dps1 PE=1 SV=1

 Score =  301 bits (772), Expect = 6e-81,   Method: Compositional matrix adjust.
 Identities = 173/401 (43%), Positives = 235/401 (58%), Gaps = 38/401 (9%)

Query: 61  ANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVG 120
           A  YGD+PL              S A  GR +T++  ++     Q VL+R RV+T+R  G
Sbjct: 73  AGKYGDLPLNR------------STARPGRTYTQISDISAKNDGQTVLLRARVYTSRLQG 120

Query: 121 NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGAT 180
           NK+ F  +R++  T+Q LA V  D++SK+MV++  S+S ESIV V G+V      IK AT
Sbjct: 121 NKMCFFSLRQKYDTIQALAVVNKDTISKQMVKWCGSISLESIVLVEGIVKKSPEIIKSAT 180

Query: 181 -QQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEI----EKASKEGVQLPRVNQDTRLNN 234
            Q  E+ I  +Y +S   K  P  +EDA RSE +I    E A++   +  RVN DTRL+N
Sbjct: 181 VQDAEIHISSIYVISPIKKNLPFLVEDAGRSEEQIRESEENAAEGDSKFVRVNLDTRLDN 240

Query: 235 RVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQ 294
           RV+D+RT  NQ IF IQ+ +   FR+FLLS +F EIHTPK+   SSEGGS VF++ Y   
Sbjct: 241 RVLDLRTPTNQAIFDIQAGICQAFREFLLSNSFNEIHTPKMSGASSEGGSNVFKIQYFKT 300

Query: 295 SACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEV 354
              L+QSPQL+KQM I  D  RVFE GPVFRAEDS T+RH+ EFTGLD+EM   +HY EV
Sbjct: 301 DGFLSQSPQLYKQMLIAADRERVFEIGPVFRAEDSNTYRHMTEFTGLDLEMAFNEHYHEV 360

Query: 355 MDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY-KPKTLRLTFEEGVQMLKDAGVE 413
           M+ ++ LF+ IF ++     K++  V +QYP E         +R  F++ V++LK+AG  
Sbjct: 361 MEFIEKLFLYIFKTIREKYAKQVAVVRQQYPSEDFILPDADRIRFHFKDAVKLLKEAGYR 420

Query: 414 I------------------DP-LGDLNTESERKLGQLVLEK 435
                              DP   D +T  ER LGQ+V EK
Sbjct: 421 KQLVPGQKVPEDEEFHYCEDPEFDDFSTPEERALGQIVREK 461

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q922B2|SYDC_MOUSE Aspartate--tRNA ligase, cytoplasmic OS=Mus musculus GN=Dars PE=2 SV=2

 Score =  299 bits (766), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 162/334 (48%), Positives = 225/334 (67%), Gaps = 9/334 (2%)

Query: 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
           D  V +R RVHT+R  G K  F+V+R++   VQ L  V  D  SK+MV+F  +++ ESI+
Sbjct: 57  DDVVWVRARVHTSRAKG-KQCFLVLRQQQFNVQALVAVG-DHASKQMVKFAANINKESII 114

Query: 164 DVIGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGV 221
           DV GVV   + +I   TQQ VE+ ++K+Y +S A  + P+ ++DA R E E E+  +  V
Sbjct: 115 DVEGVVRKVNQKIGSCTQQDVELHVQKIYVISLAEPRLPLQLDDAIRPEVEGEEDGRATV 174

Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                NQDTRL+NRVID+RT  +Q IFR+QS + ++FR+ L+++ FVEI TPK+I+ +SE
Sbjct: 175 -----NQDTRLDNRVIDLRTSTSQAIFRLQSGICHLFRETLINKGFVEIQTPKIISAASE 229

Query: 282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
           GG+ VF + Y   +A LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GL
Sbjct: 230 GGANVFTVSYFKNNAYLAQSPQLYKQMCICADFEKVFCIGPVFRAEDSNTHRHLTEFVGL 289

Query: 342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
           D+EM    HY EV++ +    V IF  L    + E++ V+KQ+P EP K+   TLRL + 
Sbjct: 290 DIEMAFNYHYHEVVEEIADTLVQIFKGLQERFQTEIQTVSKQFPCEPFKFLEPTLRLEYC 349

Query: 402 EGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           E + ML++AGVE+D   DL+T +E+ LG+LV EK
Sbjct: 350 EALAMLREAGVEMDDEEDLSTPNEKLLGRLVKEK 383

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|P15178|SYDC_RAT Aspartate--tRNA ligase, cytoplasmic OS=Rattus norvegicus GN=Dars PE=2 SV=1

 Score =  296 bits (757), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 159/334 (47%), Positives = 224/334 (67%), Gaps = 9/334 (2%)

Query: 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
           D+ V +R RVHT+R  G K  F+V+R++   VQ L  V  D  SK+MV+F  +++ ESI+
Sbjct: 57  DEVVWVRARVHTSRAKG-KQCFLVLRQQQFNVQALVAVG-DHASKQMVKFAANINKESII 114

Query: 164 DVIGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGV 221
           DV G+V   + +I   TQQ VE+ ++K+Y +S A  + P+ ++DA R E E E+  +  V
Sbjct: 115 DVEGIVRKVNQKIGSCTQQDVELHVQKIYVISLAEPRLPLQLDDAIRPEVEGEEDGRATV 174

Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                NQDTRL+NR+ID+RT  +Q IF +QS + ++FR+ L+++ FVEI TPK+I+ +SE
Sbjct: 175 -----NQDTRLDNRIIDLRTSTSQAIFHLQSGICHLFRETLINKGFVEIQTPKIISAASE 229

Query: 282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
           GG+ VF + Y   +A LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GL
Sbjct: 230 GGANVFTVSYFKSNAYLAQSPQLYKQMCICADFEKVFCIGPVFRAEDSNTHRHLTEFVGL 289

Query: 342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
           D+EM    HY EV++ +    V IF  L    + E++ V KQ+P EP K+   TLRL + 
Sbjct: 290 DIEMAFNYHYHEVVEEIADTLVQIFKGLQERFQTEIQTVNKQFPCEPFKFLEPTLRLEYC 349

Query: 402 EGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           E + ML++AGVE+D   DL+T +E+ LG+LV EK
Sbjct: 350 EALAMLREAGVEMDDEEDLSTPNEKLLGRLVKEK 383

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q03577|SYDC_CAEEL Aspartate--tRNA ligase, cytoplasmic OS=Caenorhabditis elegans GN=drs-1 PE=3 SV=1

 Score =  295 bits (754), Expect = 6e-79,   Method: Compositional matrix adjust.
 Identities = 178/419 (42%), Positives = 253/419 (60%), Gaps = 21/419 (5%)

Query: 21  ISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGP-LANNYGDVPLQELQSVNDPQ 79
           +SKK   K A K  K+E+  E       A+A+  E+       +YG V  +E + +N   
Sbjct: 12  LSKKELNKLARKAKKDEKAGEKGGNQQQAAAMDQEDASKDFYGSYGLVNSKEKKVLN--- 68

Query: 80  TGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLA 139
                       + +V  +N S   ++V +RGR+HTTR  G K  F+V+R+ V TVQ +A
Sbjct: 69  ------------FLKVKEINVSNATKDVWVRGRIHTTRSKG-KNCFLVLRQGVYTVQ-VA 114

Query: 140 TVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRAA- 197
               + +SK+M++FV S+S ESIVDV   ++  D  I+  TQ+ VE+  ++++ VS +A 
Sbjct: 115 MFMNEKISKQMLKFVSSISKESIVDVYATINKVDNPIESCTQKDVELLAQQVFVVSTSAP 174

Query: 198 KTPITIEDASR-SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGN 256
           K P+ IEDASR +  + EKAS++  QL  VN DTRL+NRVID+RT  +  IFRIQ+ + N
Sbjct: 175 KLPLQIEDASRRAPTDEEKASEQENQLAVVNLDTRLDNRVIDLRTPTSHAIFRIQAGICN 234

Query: 257 IFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGR 316
            FR  L    FVEI  PK+I+  SEGG+ VF + Y   SA LAQSPQL+KQM+I GDF +
Sbjct: 235 QFRNILDVRGFVEIMAPKIISAPSEGGANVFEVSYFKGSAYLAQSPQLYKQMAIAGDFEK 294

Query: 317 VFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKE 376
           V+  GPVFRAEDS THRH+ EF GLD+EM    HY EVM+ +  +   +F  L    + E
Sbjct: 295 VYTIGPVFRAEDSNTHRHMTEFVGLDLEMAFNFHYHEVMETIAEVLTQMFKGLQQNYQDE 354

Query: 377 LEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           + AV  QYP EP ++    L L + + + +L++ G+EI    DL+T  E+ LG+LV EK
Sbjct: 355 IAAVGNQYPAEPFQFCEPPLILKYPDAITLLRENGIEIGDEDDLSTPVEKFLGKLVKEK 413

Caenorhabditis elegans (taxid: 6239)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q3SYZ4|SYDC_BOVIN Aspartate--tRNA ligase, cytoplasmic OS=Bos taurus GN=DARS PE=2 SV=1

 Score =  292 bits (748), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 160/331 (48%), Positives = 220/331 (66%), Gaps = 9/331 (2%)

Query: 107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI 166
           V +R RVHT+R  G K  F+V+R++   VQ L  V  D  SK+MV+F  +++ ESIVDV 
Sbjct: 60  VWVRARVHTSRAKG-KQCFLVLRQQQFNVQALVAVG-DHASKQMVKFAANINKESIVDVE 117

Query: 167 GVVSVPDVEIKGATQQ-VEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLP 224
           GVV   + +I   TQQ VE+ ++K+Y +S A  + P+ ++DA R E E E+  +  V   
Sbjct: 118 GVVRKVNQKIGSCTQQDVELHVQKIYVISSAEPRLPLQLDDAVRPEVEGEEEGRATV--- 174

Query: 225 RVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGS 284
             NQDTRL+NRVID+RT  +Q IFR+QS + + FR+ L ++ FVEI TPK+I+ +SEGG+
Sbjct: 175 --NQDTRLDNRVIDLRTSTSQAIFRLQSGICHPFRETLTNKGFVEIQTPKIISAASEGGA 232

Query: 285 AVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
            VF + Y   +A LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GLD+E
Sbjct: 233 NVFTVSYFKNNAYLAQSPQLYKQMCICADFEKVFCIGPVFRAEDSNTHRHLTEFVGLDIE 292

Query: 345 MEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404
           M    HY EV++ +    V IF  L    + E++ V KQ+P EP K+   TLRL + E +
Sbjct: 293 MAFNYHYHEVVEEIADTLVQIFKGLQKRFQTEIQTVNKQFPCEPFKFLEPTLRLEYCEAL 352

Query: 405 QMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
            ML++AG+E+    DL+T +E+ LG+LV EK
Sbjct: 353 AMLREAGIEMGDEEDLSTPNEKLLGRLVKEK 383

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q5R9I5|SYDC_PONAB Aspartate--tRNA ligase, cytoplasmic OS=Pongo abelii GN=DARS PE=2 SV=1

 Score =  292 bits (747), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 167/354 (47%), Positives = 231/354 (65%), Gaps = 9/354 (2%)

Query: 84  SEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKP 143
           S+  S R    V  L     D+ V +R RVHT+R  G K  F+V+R++   VQ L  V  
Sbjct: 37  SQEKSDRVLVRVRDLTIQKADEVVWVRARVHTSRAKG-KQCFLVLRQQQFNVQALVAVG- 94

Query: 144 DSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRA-AKTPI 201
           D  SK+MV+F  +++ ESIVDV GVV   + +I+  TQQ VE+ ++K+Y +S A  + P+
Sbjct: 95  DHASKQMVKFAANINKESIVDVEGVVRKVNQKIESCTQQDVELHVQKIYVISLAEPRLPL 154

Query: 202 TIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQF 261
            ++DA R EAE E+  +  V     NQDTRL+NRVID+RT  +Q +FR+QS + ++FR+ 
Sbjct: 155 QLDDAVRPEAEGEEEGRATV-----NQDTRLDNRVIDLRTSTSQAVFRLQSGICHLFRET 209

Query: 262 LLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETG 321
           L+++ FVEI TPK+I+ +SEGG+ VF + Y   +A LAQSPQL+KQM IC DF +VF  G
Sbjct: 210 LINKGFVEIQTPKIISAASEGGANVFTVSYFKNNAYLAQSPQLYKQMCICADFEKVFCIG 269

Query: 322 PVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVA 381
           PVFRAEDS THRHL EF GLD+EM    HY EVM+ +    V IF  L    + E++ V 
Sbjct: 270 PVFRAEDSNTHRHLTEFVGLDIEMAFNYHYHEVMEEIADTMVQIFKGLQERFQTEIQTVN 329

Query: 382 KQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           KQ+P EP K+   TLRL + E + ML++AGVE+    DL+T +E+ LG L+ EK
Sbjct: 330 KQFPCEPFKFLEPTLRLEYCEALAMLREAGVEMGDEDDLSTPNEKLLGHLIKEK 383

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|P14868|SYDC_HUMAN Aspartate--tRNA ligase, cytoplasmic OS=Homo sapiens GN=DARS PE=1 SV=2

 Score =  291 bits (746), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 163/334 (48%), Positives = 224/334 (67%), Gaps = 9/334 (2%)

Query: 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
           D+ V +R RVHT+R  G K  F+V+R++   VQ L  V  D  SK+MV+F  +++ ESIV
Sbjct: 57  DEVVWVRARVHTSRAKG-KQCFLVLRQQQFNVQALVAVG-DHASKQMVKFAANINKESIV 114

Query: 164 DVIGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGV 221
           DV GVV   + +I   TQQ VE+ ++K+Y +S A  + P+ ++DA R EAE E+  +  V
Sbjct: 115 DVEGVVRKVNQKIGSCTQQDVELHVQKIYVISLAEPRLPLQLDDAVRPEAEGEEEGRATV 174

Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                NQDTRL+NRVID+RT  +Q +FR+QS + ++FR+ L+++ FVEI TPK+I+ +SE
Sbjct: 175 -----NQDTRLDNRVIDLRTSTSQAVFRLQSGICHLFRETLINKGFVEIQTPKIISAASE 229

Query: 282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
           GG+ VF + Y   +A LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GL
Sbjct: 230 GGANVFTVSYFKNNAYLAQSPQLYKQMCICADFEKVFSIGPVFRAEDSNTHRHLTEFVGL 289

Query: 342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
           D+EM    HY EVM+ +    V IF  L    + E++ V KQ+P EP K+   TLRL + 
Sbjct: 290 DIEMAFNYHYHEVMEEIADTMVQIFKGLQERFQTEIQTVNKQFPCEPFKFLEPTLRLEYC 349

Query: 402 EGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           E + ML++AGVE+    DL+T +E+ LG LV EK
Sbjct: 350 EALAMLREAGVEMGDEDDLSTPNEKLLGHLVKEK 383

Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q559M9|SYDC2_DICDI Aspartate--tRNA ligase, cytoplasmic 2 OS=Dictyostelium discoideum GN=aspS2 PE=3 SV=1

 Score =  230 bits (586), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 129/356 (36%), Positives = 204/356 (57%), Gaps = 14/356 (3%)

Query: 90  REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE 149
           +EW+ +  LN S   + VLIR RV   R  GN L F+ +R+ +S++Q + +   ++ SK 
Sbjct: 80  KEWSNISDLNESCVGKYVLIRARVSNIRSFGNSLCFLQLRDGLSSIQAVISKNDENNSKS 139

Query: 150 MVRFVRS-LSNESIVDVIGVVSVPDVEIKGAT-QQVEVQIKKLYCVSRA-AKTPITIEDA 206
           M+ F+ S ++ ESI+D+  +++     I+    + +E++I  L+  S++ +  P+  +D 
Sbjct: 140 MIHFINSTITKESIIDIEAILTNSSTPIESCIIKNLELKIYSLFLQSKSNSSLPLQFDDL 199

Query: 207 SRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSEN 266
           S+     +     G     +  ++RLNNR +D+RT  N  IF+IQS + N+FR  LL  +
Sbjct: 200 SKPTT-YQNYDDNGYTYV-IPLNSRLNNRCLDLRTFYNLSIFKIQSAISNLFRDQLLIND 257

Query: 267 FVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA 326
           F+EIH+PK+I  S    S  F+L+Y  + A L++S Q ++Q++I  DF RVFE GPV+R 
Sbjct: 258 FIEIHSPKIIKQSINENS--FKLNYFNEIAYLSESTQFYRQLAIVSDFKRVFEIGPVYRT 315

Query: 327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAK-QYP 385
           +  +THRHL EFT LD EM  K HY EV+D +D L ++IF  L    + EL+ +   Q  
Sbjct: 316 DLGHTHRHLNEFTSLDFEMTFKDHYHEVLDFLDNLMISIFKILETNYENELKIINNYQLQ 375

Query: 386 FEPLKYKPKTLRLTFEEGVQML------KDAGVEIDPLGDLNTESERKLGQLVLEK 435
           FE  K+  KT R TF E   ML      ++    ++    LN + ER  G++V EK
Sbjct: 376 FEKFKFSTKTPRFTFSEVKLMLIEFSENENNKFCMELFDYLNVQEERIFGKIVKEK 431

Dictyostelium discoideum (taxid: 44689)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 2

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	435
224087415	530	predicted protein [Populus trichocarpa]	0.944	0.775	0.704	1e-166
357437181	541	Aspartyl-tRNA synthetase [Medicago trunc	0.887	0.713	0.714	1e-165
356552406	543	PREDICTED: aspartyl-tRNA synthetase, cyt	0.944	0.756	0.714	1e-164
449437092	545	PREDICTED: aspartate--tRNA ligase, cytop	0.891	0.711	0.721	1e-164
449505487	545	PREDICTED: aspartate--tRNA ligase, cytop	0.891	0.711	0.721	1e-164
356564011	544	PREDICTED: aspartyl-tRNA synthetase, cyt	0.894	0.715	0.726	1e-164
255564914	540	aspartyl-tRNA synthetase, putative [Rici	0.947	0.762	0.72	1e-158
225429870	544	PREDICTED: aspartyl-tRNA synthetase, cyt	0.972	0.777	0.678	1e-157
30688944	558	aspartyl-tRNA synthetase [Arabidopsis th	1.0	0.779	0.645	1e-155
297802914	557	hypothetical protein ARALYDRAFT_491623 [	0.967	0.755	0.654	1e-153

>gi|224087415|ref|XP_002308157.1| predicted protein [Populus trichocarpa] gi|222854133|gb|EEE91680.1| predicted protein [Populus trichocarpa]

 Score =  590 bits (1520), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 298/423 (70%), Positives = 339/423 (80%), Gaps = 12/423 (2%)

Query: 14  VDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQ 73
           ++  +Q   K   +K+ +K++    RK    AA AAS+LSIEE+ PLA NYG++PLQ+LQ
Sbjct: 1   MNPQNQRAKKLQRRKQQSKRSYVAVRKPLWPAA-AASSLSIEED-PLAANYGNIPLQDLQ 58

Query: 74  SVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVS 133
           S  +            + WT+VG L   LK++EVLIRGR  TTR VG  +AFVVVRE+  
Sbjct: 59  SKVEADL---------KAWTQVGDLTHELKEKEVLIRGRAQTTRAVGKNMAFVVVREKGF 109

Query: 134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCV 193
           TVQC+ T +PD VSK+MV+F   LS ESIVD+ GVVSVP + IKG TQQVE+Q+ KLYCV
Sbjct: 110 TVQCVVTARPDVVSKQMVKFAAGLSRESIVDIHGVVSVPSIAIKGTTQQVEIQVSKLYCV 169

Query: 194 SRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQS 252
            +A  T PI IEDASRSE EIE+A + G QL RVNQDTRLN RV+D RT ANQGIFRIQ 
Sbjct: 170 DKAMPTLPINIEDASRSEKEIEEALEAGEQLVRVNQDTRLNYRVLDFRTSANQGIFRIQC 229

Query: 253 QVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICG 312
           QV NIFRQFLLSE+FVEIHTPKLIAGSSEGGSAVF+LDYKGQ+ACLAQSPQLHKQM+ICG
Sbjct: 230 QVCNIFRQFLLSEDFVEIHTPKLIAGSSEGGSAVFKLDYKGQAACLAQSPQLHKQMAICG 289

Query: 313 DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNV 372
           DFGRVFE GPVFRAEDSYTHRHLCEFTGLDVEMEIK+HY+EVMDIVD LFVT+FD LN  
Sbjct: 290 DFGRVFEIGPVFRAEDSYTHRHLCEFTGLDVEMEIKQHYTEVMDIVDHLFVTMFDHLNKK 349

Query: 373 CKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLV 432
           C K LEAV +QYPFEPLKY PKTLRL FEEGVQMLK+AGVEIDP GDLNTESERKLGQLV
Sbjct: 350 CSKYLEAVGRQYPFEPLKYLPKTLRLRFEEGVQMLKEAGVEIDPYGDLNTESERKLGQLV 409

Query: 433 LEK 435
           LEK
Sbjct: 410 LEK 412

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357437181|ref|XP_003588866.1| Aspartyl-tRNA synthetase [Medicago truncatula] gi|355477914|gb|AES59117.1| Aspartyl-tRNA synthetase [Medicago truncatula]

 Score =  588 bits (1517), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 291/407 (71%), Positives = 333/407 (81%), Gaps = 21/407 (5%)

Query: 35  KEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQS-----VNDPQTGKWSEAVSG 89
           +++RR+E  AA SA S LS+E++ PLA NYG VPL ELQS     VND            
Sbjct: 32  EKQRRREVAAATSATSTLSVEDD-PLAVNYGIVPLIELQSKTPANVND------------ 78

Query: 90  REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE 149
             WT V ALN SL++++VLIRGR    RPVG K+AF+V+RE   TVQCL   +PD VS +
Sbjct: 79  --WTRVEALNDSLENKQVLIRGRAQAIRPVGKKMAFLVIRENGFTVQCLVQAQPDLVSPQ 136

Query: 150 MVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASR 208
           MV+F  +LS ESIVDV GVVS+P   IKGATQQ+E+Q++KLYCVS+A  T PI IEDA+R
Sbjct: 137 MVKFAAALSRESIVDVEGVVSIPAAPIKGATQQIEIQVRKLYCVSKAIPTLPINIEDAAR 196

Query: 209 SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFV 268
           SE EIEKA + G QL RVNQDTRLN RV+D+RT ANQGIFRIQSQVGN+FRQFLL+E+FV
Sbjct: 197 SEVEIEKAIQAGEQLVRVNQDTRLNFRVLDLRTPANQGIFRIQSQVGNVFRQFLLAESFV 256

Query: 269 EIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED 328
           EIHTPKLIAGSSEGG+AVFRLDYKGQ ACLAQSPQLHKQMSICGDFGRVFE GPVFRAED
Sbjct: 257 EIHTPKLIAGSSEGGAAVFRLDYKGQPACLAQSPQLHKQMSICGDFGRVFEIGPVFRAED 316

Query: 329 SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP 388
           S+THRHLCEFTGLDVEMEIKKHY EVMD+VD LFV +FD+LN  CKK+LEAVA QYPFEP
Sbjct: 317 SFTHRHLCEFTGLDVEMEIKKHYFEVMDVVDKLFVAMFDTLNTKCKKDLEAVANQYPFEP 376

Query: 389 LKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           LKY P TLRLT+EEG+QMLK+ GVEI+P GDLNTE+ERKLGQLVLEK
Sbjct: 377 LKYLPNTLRLTYEEGIQMLKEVGVEIEPFGDLNTEAERKLGQLVLEK 423

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552406|ref|XP_003544559.1| PREDICTED: aspartyl-tRNA synthetase, cytoplasmic-like [Glycine max]

 Score =  585 bits (1509), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 301/421 (71%), Positives = 336/421 (79%), Gaps = 10/421 (2%)

Query: 16  SSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSV 75
           SS   +SKKAAKKEAAK  K  RR+E   A++A + LS++EE PL  NYGDVPL ELQS 
Sbjct: 14  SSEAQVSKKAAKKEAAKLEKLRRRQEIATASAATANLSVDEEDPLGGNYGDVPLVELQSK 73

Query: 76  NDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTV 135
                G         EWT V AL G+L+++ VLIRGR    RPVG K+AF+V+RE   TV
Sbjct: 74  TSADVG---------EWTRVEALGGALENRSVLIRGRAQAIRPVGKKMAFLVIRENGFTV 124

Query: 136 QCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSR 195
           QCL   + D+VS +MV+F  +LS ESIVDV GVVS+P   IKGATQQVE+Q++KLYCVSR
Sbjct: 125 QCLVQAQADTVSPQMVKFAAALSRESIVDVEGVVSIPSAPIKGATQQVEIQVRKLYCVSR 184

Query: 196 AAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQV 254
           A  T PI +EDA+RSE EIE A + G QL RVNQDTRLN RV+D+RT ANQGIFRIQSQV
Sbjct: 185 AVPTLPINLEDAARSEVEIETALQAGEQLVRVNQDTRLNFRVLDVRTPANQGIFRIQSQV 244

Query: 255 GNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDF 314
           GN FRQFLLSE F EIHTPKLIAGSSEGG+AVFRLDYKGQ ACLAQSPQLHKQMSICGDF
Sbjct: 245 GNAFRQFLLSEGFCEIHTPKLIAGSSEGGAAVFRLDYKGQPACLAQSPQLHKQMSICGDF 304

Query: 315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCK 374
           GRVFE GPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY EVMDIVD LFV +FDSLN  CK
Sbjct: 305 GRVFEIGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYFEVMDIVDRLFVAMFDSLNQNCK 364

Query: 375 KELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLE 434
           K+LEAV  QYPFEPLKY   TLRLT+EEG+QMLKD GVEI+P GDLNTE+ERKLGQLV E
Sbjct: 365 KDLEAVGSQYPFEPLKYLRTTLRLTYEEGIQMLKDVGVEIEPYGDLNTEAERKLGQLVSE 424

Query: 435 K 435
           K
Sbjct: 425 K 425

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437092|ref|XP_004136326.1| PREDICTED: aspartate--tRNA ligase, cytoplasmic-like [Cucumis sativus]

 Score =  585 bits (1507), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 288/399 (72%), Positives = 333/399 (83%), Gaps = 11/399 (2%)

Query: 38  RRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGA 97
           RR++  AA SA S+L++E++ PL+ NYGDVPL +LQS          E  S   WT+VG+
Sbjct: 39  RRRQEAAAESAISSLNVEDD-PLSANYGDVPLSDLQS---------KEVKSIENWTQVGS 88

Query: 98  LNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSL 157
           L   LKD+ V++RGRV T R VG K+AF+VVRE+  TVQC+ + +P+ VS++MV++V  L
Sbjct: 89  LTPELKDKYVILRGRVQTIRAVGKKMAFLVVREKGFTVQCVLSEQPELVSRQMVKYVDGL 148

Query: 158 SNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKA 216
           S ESIVDV GVVSVP+V IKGA+QQVE+Q++K+YC+S+A  T PI IEDA+RSEAEI+KA
Sbjct: 149 SRESIVDVEGVVSVPNVAIKGASQQVEIQVRKVYCISKAMPTLPINIEDAARSEAEIDKA 208

Query: 217 SKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLI 276
            + G QL RVNQDTRLN RV+D+RT ANQGIFRIQ QV  +FRQFLL ENFVEIHTPKLI
Sbjct: 209 LQAGEQLVRVNQDTRLNYRVLDMRTPANQGIFRIQCQVSTMFRQFLLDENFVEIHTPKLI 268

Query: 277 AGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLC 336
            GSSEGG++VFRLDYKGQ ACLAQSPQLHKQM+ICGDFGRVFE GPVFRAEDSYTHRHLC
Sbjct: 269 GGSSEGGASVFRLDYKGQPACLAQSPQLHKQMAICGDFGRVFEIGPVFRAEDSYTHRHLC 328

Query: 337 EFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTL 396
           EFTGLDVEMEIK HYSEVMDIVD LFV +FDSLN  CKK LEAV KQYPFEPLKY  KTL
Sbjct: 329 EFTGLDVEMEIKTHYSEVMDIVDRLFVAMFDSLNEKCKKALEAVDKQYPFEPLKYLRKTL 388

Query: 397 RLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           RLTFEEG+QMLKDAGVEIDPLGDLNTE+ERKLGQLVLEK
Sbjct: 389 RLTFEEGIQMLKDAGVEIDPLGDLNTEAERKLGQLVLEK 427

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449505487|ref|XP_004162485.1| PREDICTED: aspartate--tRNA ligase, cytoplasmic-like [Cucumis sativus]

 Score =  583 bits (1504), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 288/399 (72%), Positives = 333/399 (83%), Gaps = 11/399 (2%)

Query: 38  RRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGA 97
           RR++  AA SA S+L++E++ PL+ NYGDVPL +LQS          E  S   WT+VG+
Sbjct: 39  RRRQEAAAESAISSLNVEDD-PLSANYGDVPLSDLQS---------KEVKSIENWTQVGS 88

Query: 98  LNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSL 157
           L   LKD+ V++RGRV T R VG K+AF+VVRE+  TVQC+ + +P+ VS++MV++V  L
Sbjct: 89  LTPELKDKYVILRGRVQTIRAVGKKMAFLVVREKGFTVQCVLSEQPELVSRQMVKYVDGL 148

Query: 158 SNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKA 216
           S ESIVDV GVVSVP+V IKGA+QQVE+Q++K+YC+S+A  T PI IEDA+RSEAEI+KA
Sbjct: 149 SRESIVDVEGVVSVPNVAIKGASQQVEIQVRKVYCISKAMPTLPINIEDAARSEAEIDKA 208

Query: 217 SKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLI 276
            + G QL RVNQDTRLN RV+D+RT ANQGIFRIQ QV  +FRQFLL ENFVEIHTPKLI
Sbjct: 209 LQAGEQLVRVNQDTRLNYRVLDMRTPANQGIFRIQCQVSTMFRQFLLDENFVEIHTPKLI 268

Query: 277 AGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLC 336
            GSSEGG++VFRLDYKGQ ACLAQSPQLHKQM+ICGDFGRVFE GPVFRAEDSYTHRHLC
Sbjct: 269 GGSSEGGASVFRLDYKGQPACLAQSPQLHKQMAICGDFGRVFEIGPVFRAEDSYTHRHLC 328

Query: 337 EFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTL 396
           EFTGLDVEMEIK HYSEVMDIVD LFV +FDSLN  CKK LEAV KQYPFEPLKY  KTL
Sbjct: 329 EFTGLDVEMEIKTHYSEVMDIVDRLFVAMFDSLNEKCKKALEAVDKQYPFEPLKYLRKTL 388

Query: 397 RLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           RLTFEEG+QMLKDAGVEIDPLGDLNTE+ERKLGQLVLEK
Sbjct: 389 RLTFEEGIQMLKDAGVEIDPLGDLNTEAERKLGQLVLEK 427

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564011|ref|XP_003550250.1| PREDICTED: aspartyl-tRNA synthetase, cytoplasmic-like [Glycine max]

 Score =  583 bits (1504), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 290/399 (72%), Positives = 325/399 (81%), Gaps = 10/399 (2%)

Query: 38  RRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGA 97
           RR+E  AA++A + LS++EE PL  NYGDVPL ELQS      G         EWT V A
Sbjct: 37  RRQEIAAASAATANLSVDEEDPLGGNYGDVPLVELQSKTPSDVG---------EWTRVEA 87

Query: 98  LNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSL 157
           L G+L++  VLIRGR    RPVG K+AF+V+RE   TVQCL   +PD+VS +MV+F  +L
Sbjct: 88  LGGALENNSVLIRGRAQAIRPVGKKMAFLVIRENGFTVQCLVQAQPDTVSAQMVKFAAAL 147

Query: 158 SNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKA 216
           S ESIVDV GVVSVP   IKGATQQVE+Q++KLYCVSRA  T PI +EDA+RSE EIEKA
Sbjct: 148 SRESIVDVEGVVSVPTAPIKGATQQVEIQVRKLYCVSRAVPTLPINLEDAARSEVEIEKA 207

Query: 217 SKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLI 276
            + G QL RVNQDTRLN RV+D+RT ANQGIFRIQSQVGN FRQFL+S+ F EIHTPKLI
Sbjct: 208 LQAGEQLVRVNQDTRLNFRVLDVRTPANQGIFRIQSQVGNAFRQFLVSQGFCEIHTPKLI 267

Query: 277 AGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLC 336
           AGSSEGG+AVFRLDYKGQ ACLAQSPQLHKQMSICGDFGRVFE GPVFRAEDSYTHRHLC
Sbjct: 268 AGSSEGGAAVFRLDYKGQPACLAQSPQLHKQMSICGDFGRVFEIGPVFRAEDSYTHRHLC 327

Query: 337 EFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTL 396
           EFTGLDVEMEIKKHY EVMD+VD LFV +FDSLN  CKK+LEAV  QYPFEPLKY  KTL
Sbjct: 328 EFTGLDVEMEIKKHYFEVMDLVDRLFVAMFDSLNQNCKKDLEAVGSQYPFEPLKYLRKTL 387

Query: 397 RLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           RLT+EEG+QMLKD GVEI+P GDLNTE+ERKLGQLVLEK
Sbjct: 388 RLTYEEGIQMLKDVGVEIEPYGDLNTEAERKLGQLVLEK 426

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564914|ref|XP_002523450.1| aspartyl-tRNA synthetase, putative [Ricinus communis] gi|223537278|gb|EEF38909.1| aspartyl-tRNA synthetase, putative [Ricinus communis]

 Score =  564 bits (1454), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 306/425 (72%), Positives = 349/425 (82%), Gaps = 13/425 (3%)

Query: 15  DSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASA--LSIEE-EGPLANNYGDVPLQE 71
           +SS+Q+ SKKAAKKEAAK+ K  RR+EA AAA+AA+A  LS+E+ E PL+ NYG+ PL +
Sbjct: 7   ESSAQTTSKKAAKKEAAKQEKLRRREEAAAAAAAAAAAALSMEDQEDPLSGNYGNTPLSD 66

Query: 72  LQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRER 131
           LQS          E     EWT VG LN  LKD+E+LIRGR  TTR VG  +AFVVVR++
Sbjct: 67  LQS---------KEESDLSEWTRVGQLNEELKDKELLIRGRAQTTRAVGKNMAFVVVRQK 117

Query: 132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLY 191
             TVQC+ TV+ D VS++MV+FV  LS ESIVDV GVVSVP+  IKG TQQVEVQ++KLY
Sbjct: 118 GFTVQCVVTVQADLVSRQMVKFVAGLSRESIVDVRGVVSVPNSPIKGTTQQVEVQVRKLY 177

Query: 192 CVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI 250
           C+S+A  T PI IEDA+RSE EIE+A + G Q  RVNQDTRLN RV+D+RT ANQGIFRI
Sbjct: 178 CISKAIPTLPINIEDAARSEKEIEEALQRGEQFVRVNQDTRLNYRVLDMRTPANQGIFRI 237

Query: 251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSI 310
           QS+VGNIFRQFLLSE+F EIHTPKLIAGSSEGGSAVF+LDYKGQ ACLAQSPQLHKQM+I
Sbjct: 238 QSEVGNIFRQFLLSEDFDEIHTPKLIAGSSEGGSAVFKLDYKGQPACLAQSPQLHKQMAI 297

Query: 311 CGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370
           CGD  RVFE GPVFRAEDSYTHRHLCEF GLDVEMEIKKHYSEVMDIVD LFV +FD LN
Sbjct: 298 CGDKERVFEVGPVFRAEDSYTHRHLCEFVGLDVEMEIKKHYSEVMDIVDRLFVKMFDYLN 357

Query: 371 NVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQ 430
             CKKEL+AV +QYPFEPLKY  KTLRL FEEG+QMLK+AGVE+DP GDLNTE+ERKLGQ
Sbjct: 358 EKCKKELDAVCRQYPFEPLKYLRKTLRLRFEEGIQMLKEAGVEVDPYGDLNTEAERKLGQ 417

Query: 431 LVLEK 435
           LVLEK
Sbjct: 418 LVLEK 422

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429870|ref|XP_002283440.1| PREDICTED: aspartyl-tRNA synthetase, cytoplasmic [Vitis vinifera]

 Score =  560 bits (1444), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 297/438 (67%), Positives = 350/438 (79%), Gaps = 15/438 (3%)

Query: 1   MSTESEPPKVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSI---EEE 57
           MS+ES+ P +   V+  +++ SKKAAKKEAAK  K+ RR+EA ++A++AS   I   +  
Sbjct: 1   MSSESQTPNLS--VEDEAKAQSKKAAKKEAAKLEKQRRRQEAASSAASASVAGISIGDTP 58

Query: 58  GPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTR 117
            PLA+NYGDVPL +LQS          + V+G +WT++GAL   LKDQ+VLIRGR  T R
Sbjct: 59  DPLASNYGDVPLLDLQS----------KEVTGLKWTDIGALTEDLKDQKVLIRGRAQTIR 108

Query: 118 PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK 177
            VG  +AF+VVR+   TVQC+ TV PD VS+ MV++   LS ES VD+ G++SVP V IK
Sbjct: 109 AVGKNIAFLVVRQMGFTVQCVLTVAPDLVSRHMVKYATGLSRESHVDIEGIISVPGVPIK 168

Query: 178 GATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVI 237
           GATQQVEVQ++KLY +S+A   PI IEDA+RSE+EIEKA + G QL RVNQDTRLN RV+
Sbjct: 169 GATQQVEVQVRKLYGISKAENLPINIEDAARSESEIEKALQAGEQLVRVNQDTRLNYRVL 228

Query: 238 DIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSAC 297
           D+RT ANQ IFR+Q QV NIFRQFLLSE FV IHTPKLI GSSEGGSAVFRLDYKGQ AC
Sbjct: 229 DLRTPANQAIFRVQCQVENIFRQFLLSEGFVGIHTPKLIGGSSEGGSAVFRLDYKGQPAC 288

Query: 298 LAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDI 357
           LAQSPQLHKQM+ICGDFGRVFE GPVFRAEDS+THRHLCEFTGLDVEMEIK+HY EVMDI
Sbjct: 289 LAQSPQLHKQMAICGDFGRVFEIGPVFRAEDSFTHRHLCEFTGLDVEMEIKEHYFEVMDI 348

Query: 358 VDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPL 417
           VD LFV +FDSLN  CKKELEA+ +QYPFEPLKY  KTLRL F+EGVQMLK+ G+E+DP 
Sbjct: 349 VDRLFVAMFDSLNENCKKELEAIERQYPFEPLKYLRKTLRLPFQEGVQMLKEVGMEVDPY 408

Query: 418 GDLNTESERKLGQLVLEK 435
           GDLNTE+ERKLGQLVLEK
Sbjct: 409 GDLNTEAERKLGQLVLEK 426

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30688944|ref|NP_849558.1| aspartyl-tRNA synthetase [Arabidopsis thaliana] gi|30688949|ref|NP_194847.3| aspartyl-tRNA synthetase [Arabidopsis thaliana] gi|7270020|emb|CAB79836.1| aspartate--tRNA ligase-like protein [Arabidopsis thaliana] gi|222424631|dbj|BAH20270.1| AT4G31180 [Arabidopsis thaliana] gi|332660472|gb|AEE85872.1| aspartyl-tRNA synthetase [Arabidopsis thaliana] gi|332660473|gb|AEE85873.1| aspartyl-tRNA synthetase [Arabidopsis thaliana]

 Score =  554 bits (1427), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 284/440 (64%), Positives = 343/440 (77%), Gaps = 5/440 (1%)

Query: 1   MSTESEPPKVQEEV---DSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
           MS+ESE P +       + S +  SKKAAKKEAAK  K  RR+E E A    +++S+EE 
Sbjct: 1   MSSESEIPPLSSSTAAAEESGEKTSKKAAKKEAAKLEKLRRRQEQEEATRRTASISLEEN 60

Query: 58  GPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTR 117
              +NNYGDV L ELQS  DP+ GKW EAV G+EWT+V  L   + + EVLIRGRVHT R
Sbjct: 61  DEFSNNYGDVTLTELQSSADPKAGKWIEAVEGKEWTDVSDLVEEMLESEVLIRGRVHTNR 120

Query: 118 PVGNKLAFVVVRERVSTVQCLATVKPDS-VSKEMVRFVRSLSNESIVDVIGVVSVPDVEI 176
           P  NKL FVV+RE  STVQC+ +    + V   MV++++ LS ES VDVIGVV++P   +
Sbjct: 121 PTSNKLGFVVLRESGSTVQCVVSQSEKTKVGANMVKYLKQLSRESFVDVIGVVTLPKEPL 180

Query: 177 KGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNR 235
            G TQQVE+Q++K+YC++++ AK P+++EDA+RSEA+IE + +      RVNQDTRLN R
Sbjct: 181 TGTTQQVEIQVRKVYCINKSLAKLPLSVEDAARSEADIEASLQTPSPAARVNQDTRLNYR 240

Query: 236 VIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQS 295
           V+D+RT ANQ IF++Q +V   FR+ L  +NFV IHTPKL+AGSSEGGSAVFRL+YKGQ 
Sbjct: 241 VLDLRTPANQAIFQLQYEVEYAFREKLRFKNFVGIHTPKLMAGSSEGGSAVFRLEYKGQP 300

Query: 296 ACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVM 355
           ACLAQSPQLHKQM+ICGD  RVFE GPVFRAEDS+THRHLCEF GLDVEMEI+KHYSE+M
Sbjct: 301 ACLAQSPQLHKQMAICGDLRRVFEVGPVFRAEDSFTHRHLCEFVGLDVEMEIRKHYSEIM 360

Query: 356 DIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEID 415
           D+VD LFV IF SLN  CKKEL+AV KQYPFEPLK+ PKTLRLTFEEGVQMLK+AGVE+D
Sbjct: 361 DLVDELFVFIFTSLNERCKKELQAVGKQYPFEPLKFLPKTLRLTFEEGVQMLKEAGVEVD 420

Query: 416 PLGDLNTESERKLGQLVLEK 435
           PLGDLNTESERKLGQLVLEK
Sbjct: 421 PLGDLNTESERKLGQLVLEK 440

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802914|ref|XP_002869341.1| hypothetical protein ARALYDRAFT_491623 [Arabidopsis lyrata subsp. lyrata] gi|297315177|gb|EFH45600.1| hypothetical protein ARALYDRAFT_491623 [Arabidopsis lyrata subsp. lyrata]

 Score =  546 bits (1407), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 277/423 (65%), Positives = 335/423 (79%), Gaps = 2/423 (0%)

Query: 15  DSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQS 74
           + S + ISKKAAKKEAAK  K  RR+E + A    +++S+EE    ++NYGDV L ELQS
Sbjct: 17  EESGEKISKKAAKKEAAKLEKLRRRQEQDEATRKTASMSLEENEEYSSNYGDVTLNELQS 76

Query: 75  VNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVST 134
             DP+ GKW EAV G++WT+V  L   + + EVLIRGRVH  RP  +KL F+++RE  ST
Sbjct: 77  TADPKAGKWREAVEGKDWTDVSDLVEEMVESEVLIRGRVHINRPTSSKLGFLILRESGST 136

Query: 135 VQCLATVKPDS-VSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCV 193
           VQC+      + V   MV++   LS ES VDVIGVV +P   + G TQQVE+Q++K+YC+
Sbjct: 137 VQCVVRQSEKTKVGANMVKYSEQLSRESFVDVIGVVVLPKEPLTGTTQQVEIQVRKVYCI 196

Query: 194 SRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQS 252
           ++A AK P+++EDA+RSEA+IEK+ +      RVNQDTRLN+RV+D+RT ANQ IFR+Q 
Sbjct: 197 NKALAKLPLSVEDAARSEADIEKSLQTEKPAARVNQDTRLNHRVLDLRTPANQAIFRLQC 256

Query: 253 QVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICG 312
           QV N FR+ L+ ++FV IHTPKL+AGSSEGGSAVFRL+YKGQ ACLAQSPQLHKQM+ICG
Sbjct: 257 QVENSFREKLIFKDFVGIHTPKLMAGSSEGGSAVFRLEYKGQPACLAQSPQLHKQMAICG 316

Query: 313 DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNV 372
           D  RVFE GPVFRAEDS+THRHLCEF GLDVEMEI+KHYSE+MD+VD LFV IF SLN  
Sbjct: 317 DLRRVFEVGPVFRAEDSFTHRHLCEFVGLDVEMEIRKHYSEIMDLVDELFVFIFTSLNEK 376

Query: 373 CKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLV 432
           CKKELEAV KQYPFEPLK+ PKTLRLTFEEGVQMLK+AGVE+DPLGDLNTESERKLGQLV
Sbjct: 377 CKKELEAVRKQYPFEPLKFLPKTLRLTFEEGVQMLKEAGVEVDPLGDLNTESERKLGQLV 436

Query: 433 LEK 435
           LEK
Sbjct: 437 LEK 439

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	435
TAIR|locus:2126306	558	AT4G31180 [Arabidopsis thalian	0.862	0.672	0.657	1.5e-129
TAIR|locus:2116397	532	AT4G26870 [Arabidopsis thalian	0.829	0.678	0.614	2.2e-114
SGD|S000003941	557	DPS1 "Aspartyl-tRNA synthetase	0.825	0.644	0.471	1.9e-76
FB|FBgn0002069	531	Aats-asp "Aspartyl-tRNA synthe	0.786	0.644	0.454	9.6e-73
ZFIN|ZDB-GENE-061110-135	531	dars "aspartyl-tRNA synthetase	0.747	0.612	0.470	1.6e-72
CGD|CAL0001457	578	DPS1-1 [Candida albicans (taxi	0.829	0.624	0.433	2.5e-72
POMBASE|SPCC1223.07c	580	drs1 "cytoplasmic aspartate-tR	0.779	0.584	0.435	7.6e-72
UNIPROTKB|P14868	501	DARS "Aspartate--tRNA ligase,	0.747	0.648	0.470	3.7e-71
MGI|MGI:2442544	501	Dars "aspartyl-tRNA synthetase	0.744	0.646	0.471	9.9e-71
UNIPROTKB|Q5ZJQ6	503	DARS "Uncharacterized protein"	0.744	0.644	0.465	2.6e-70

TAIR|locus:2126306 AT4G31180 [Arabidopsis thaliana (taxid:3702)]

 Score = 1271 (452.5 bits), Expect = 1.5e-129, P = 1.5e-129
 Identities = 248/377 (65%), Positives = 296/377 (78%)

Query:    61 ANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVG 120
             +NNYGDV L ELQS  DP+ GKW EAV G+EWT+V  L   + + EVLIRGRVHT RP  
Sbjct:    64 SNNYGDVTLTELQSSADPKAGKWIEAVEGKEWTDVSDLVEEMLESEVLIRGRVHTNRPTS 123

Query:   121 NKLAFVVVRERVSTVQCLATVKPDS-VSKEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGA 179
             NKL FVV+RE  STVQC+ +    + V   MV++++ LS E               + G 
Sbjct:   124 NKLGFVVLRESGSTVQCVVSQSEKTKVGANMVKYLKQLSRESFVDVIGVVTLPKEPLTGT 183

Query:   180 TQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVID 238
             TQQVE+Q++K+YC++++ AK P+++EDA+RSEA+IE + +      RVNQDTRLN RV+D
Sbjct:   184 TQQVEIQVRKVYCINKSLAKLPLSVEDAARSEADIEASLQTPSPAARVNQDTRLNYRVLD 243

Query:   239 IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACL 298
             +RT ANQ IF++Q +V   FR+ L  +NFV IHTPKL+AGSSEGGSAVFRL+YKGQ ACL
Sbjct:   244 LRTPANQAIFQLQYEVEYAFREKLRFKNFVGIHTPKLMAGSSEGGSAVFRLEYKGQPACL 303

Query:   299 AQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIV 358
             AQSPQLHKQM+ICGD  RVFE GPVFRAEDS+THRHLCEF GLDVEMEI+KHYSE+MD+V
Sbjct:   304 AQSPQLHKQMAICGDLRRVFEVGPVFRAEDSFTHRHLCEFVGLDVEMEIRKHYSEIMDLV 363

Query:   359 DCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLG 418
             D LFV IF SLN  CKKEL+AV KQYPFEPLK+ PKTLRLTFEEGVQMLK+AGVE+DPLG
Sbjct:   364 DELFVFIFTSLNERCKKELQAVGKQYPFEPLKFLPKTLRLTFEEGVQMLKEAGVEVDPLG 423

Query:   419 DLNTESERKLGQLVLEK 435
             DLNTESERKLGQLVLEK
Sbjct:   424 DLNTESERKLGQLVLEK 440

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA;ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM;IEA;ISS

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA;ISS

GO:0046686 "response to cadmium ion" evidence=IEP;RCA

GO:0005829 "cytosol" evidence=IDA

GO:0000741 "karyogamy" evidence=RCA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0006096 "glycolysis" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0051604 "protein maturation" evidence=RCA

TAIR|locus:2116397 AT4G26870 [Arabidopsis thaliana (taxid:3702)]

 Score = 1128 (402.1 bits), Expect = 2.2e-114, P = 2.2e-114
 Identities = 231/376 (61%), Positives = 276/376 (73%)

Query:    61 ANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVG 120
             ++NYGDV   ELQS           AV G+E T+V  L   +   EV IRGR+H  R VG
Sbjct:    53 SSNYGDVTTNELQS-----------AVEGKELTDVSNLVEEIVGSEVSIRGRLHKNRLVG 101

Query:   121 NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGAT 180
              KL FV++RE   TVQC+  V+   V   M++FV+ LS E               + G T
Sbjct:   102 TKL-FVILRESGFTVQCV--VEETRVGANMIKFVKQLSRESVVELIGVVSHPKKPLTGTT 158

Query:   181 QQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDI 239
             QQVE+ ++K+YC+SR+    P+ +EDA+RSE++IEK+ K+G Q  RV QDTRLNNRV+DI
Sbjct:   159 QQVEIHVRKMYCLSRSLPNLPLVVEDAARSESDIEKSGKDGKQAARVLQDTRLNNRVLDI 218

Query:   240 RTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLA 299
             RT ANQ IFRIQ QV   FR++L S+ F+EIHTPKLIAGSSEGGSAVFRLDYKGQ ACLA
Sbjct:   219 RTPANQAIFRIQCQVQIAFREYLQSKGFLEIHTPKLIAGSSEGGSAVFRLDYKGQPACLA 278

Query:   300 QSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVD 359
             QSPQLHKQM+ICGD  RVFE GPVFRAEDS+THRHLCEF GLDVEMEI+ HYSE+MD+V 
Sbjct:   279 QSPQLHKQMAICGDMRRVFEVGPVFRAEDSFTHRHLCEFVGLDVEMEIRMHYSEIMDLVG 338

Query:   360 CLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGD 419
              LF  IF  +   C KELE+V KQYPF+ LK+ P+TLRLTF EG+QMLK+AG E+DPLGD
Sbjct:   339 ELFPFIFTKIEERCPKELESVRKQYPFQSLKFLPQTLRLTFAEGIQMLKEAGEEVDPLGD 398

Query:   420 LNTESERKLGQLVLEK 435
             LNTESERKLGQLVLEK
Sbjct:   399 LNTESERKLGQLVLEK 414

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA;ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM;IEA

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA;ISS

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0006346 "methylation-dependent chromatin silencing" evidence=RCA

GO:0009616 "virus induced gene silencing" evidence=RCA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010050 "vegetative phase change" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0016246 "RNA interference" evidence=RCA

SGD|S000003941 DPS1 "Aspartyl-tRNA synthetase" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 770 (276.1 bits), Expect = 1.9e-76, P = 1.9e-76
 Identities = 179/380 (47%), Positives = 242/380 (63%)

Query:    62 NNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGN 121
             +NYG +PL  +QS +  +TG+  + V   ++ ++     S  D+EVL R RVH TR  G 
Sbjct:    73 DNYGKLPL--IQSRDSDRTGQ--KRV---KFVDLDEAKDS--DKEVLFRARVHNTRQQGA 123

Query:   122 KLAFVVVRERVSTVQCLATV-KPDSVSKEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGAT 180
              LAF+ +R++ S +Q L    K  ++SK MV++  SL+ E               IK AT
Sbjct:   124 TLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKSAT 183

Query:   181 -QQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVID 238
              Q +E+ I K+Y +S   +  PI +EDASRSEAE E A      LP VN DTRL+ RVID
Sbjct:   184 VQNLEIHITKIYTISETPEALPILLEDASRSEAEAEAAG-----LPVVNLDTRLDYRVID 238

Query:   239 IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY-KGQSAC 297
             +RT+ NQ IFRIQ+ V  +FR++L ++ F E+HTPKL+   SEGGS+VF + Y KG+ A 
Sbjct:   239 LRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKGK-AY 297

Query:   298 LAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDI 357
             LAQSPQ +KQ  I  DF RV+E GPVFRAE+S THRH+ EFTGLD+EM  ++HY EV+D 
Sbjct:   298 LAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDT 357

Query:   358 VDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP--KTLRLTFEEGVQMLKDAGVEID 415
             +  LFV IF  L      E+E V KQYP E  K     K +RLT++EG++ML+ AG EI 
Sbjct:   358 LSELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIG 417

Query:   416 PLGDLNTESERKLGQLVLEK 435
                DL+TE+E+ LG+LV +K
Sbjct:   418 DFEDLSTENEKFLGKLVRDK 437

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA;ISS;IDA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA;IDA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IDA

GO:0016874 "ligase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA;ISS;IDA

GO:0006412 "translation" evidence=IEA

GO:0002181 "cytoplasmic translation" evidence=ISS

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

FB|FBgn0002069 Aats-asp "Aspartyl-tRNA synthetase" [Drosophila melanogaster (taxid:7227)]

 Score = 735 (263.8 bits), Expect = 9.6e-73, P = 9.6e-73
 Identities = 159/350 (45%), Positives = 226/350 (64%)

Query:    88 SGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVS 147
             S R +  V  L+G +    V +RGRVHT+R  G K  F+++R++ STVQC+  V  D +S
Sbjct:    70 SERNFVPVSELSGQVGKGLVWVRGRVHTSRAKG-KQCFLILRQQSSTVQCILAVG-DVIS 127

Query:   148 KEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGATQQ-VEVQIKKLYCVSRA-AKTPITIED 205
             K+MV+F  ++  E              +I+  T+Q +E+ +++++ +S+A A+ P+ IED
Sbjct:   128 KQMVKFAGNIPKESIIDIQAKPVAVSSKIESCTEQSLELSVEQIFVISQAKAQLPLQIED 187

Query:   206 ASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSE 265
             ASR E   + A  EG+ + RVNQDTRL+NRV+D+RT ANQ IFR+++ V  +FR  L  +
Sbjct:   188 ASRPE-NADDA--EGLNI-RVNQDTRLDNRVLDLRTPANQAIFRLEAGVCRLFRDILTEQ 243

Query:   266 NFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
              F EIHTPK+I+ +SEGG+ VF + Y   SA LAQSPQL+KQM+I  DF +V+  G VFR
Sbjct:   244 GFTEIHTPKIISAASEGGANVFTVSYFKDSAYLAQSPQLYKQMAIAADFDKVYTVGAVFR 303

Query:   326 AEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYP 385
             AEDS THRHL EF GLD+EM  K HY EV+  +   F +IF  L +   KE+E+V +QY 
Sbjct:   304 AEDSNTHRHLTEFVGLDLEMAFKYHYHEVLHTIGNTFTSIFKGLRDKYAKEIESVGQQYK 363

Query:   386 FEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
              +  K+    L L F +GV ML++AGVE     DL+T +E+ LG+LV  K
Sbjct:   364 VDAFKFLEPPLILQFADGVAMLREAGVETGDEEDLSTPNEKLLGRLVKAK 413

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=ISS

GO:0004815 "aspartate-tRNA ligase activity" evidence=ISS

GO:0040007 "growth" evidence=IMP

GO:0005737 "cytoplasm" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005875 "microtubule associated complex" evidence=IDA

GO:0022008 "neurogenesis" evidence=IMP

ZFIN|ZDB-GENE-061110-135 dars "aspartyl-tRNA synthetase" [Danio rerio (taxid:7955)]

 Score = 733 (263.1 bits), Expect = 1.6e-72, P = 1.6e-72
 Identities = 157/334 (47%), Positives = 219/334 (65%)

Query:   104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXX 163
             +Q++ +R R+HT+R  G K  F+V+R +  TVQ L  V  D  SK+MV+F  +++ E   
Sbjct:    87 EQQIWVRARIHTSRAKG-KQCFLVLRHQQFTVQALLAVG-DRASKQMVKFAANITKESII 144

Query:   164 XXXXXXXXXXXEIKGATQQ-VEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGV 221
                        +I+  +QQ VE+ +++++ +S++ A+ P+ +EDA R E E     +EG 
Sbjct:   145 DVEAVVKKVEQKIESCSQQDVELHVERIFVISQSEARLPLQLEDAVRPEGE---GDEEG- 200

Query:   222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                 VNQDTRL+NRVID+RT  +Q IFR+QS V  +FR  L+++ FVEI TPK+I+ +SE
Sbjct:   201 -RATVNQDTRLDNRVIDLRTTTSQAIFRLQSGVCQLFRDTLINKGFVEIQTPKIISAASE 259

Query:   282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
             GG+ VF + Y   SA LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GL
Sbjct:   260 GGANVFTVSYFKTSAYLAQSPQLYKQMCICADFDKVFCVGPVFRAEDSNTHRHLTEFVGL 319

Query:   342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
             D+EM    HY EV+D +    V IF  L +  + E++ V KQYP EP K+   TLRL ++
Sbjct:   320 DIEMAFSYHYHEVIDSITDTMVQIFKGLRDRFQTEIQTVNKQYPSEPFKFLEPTLRLEYK 379

Query:   402 EGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
             EG+ ML+ AGVE+    DL+T +E+ LG+LV EK
Sbjct:   380 EGLAMLRAAGVEMGDEEDLSTPNEKLLGRLVKEK 413

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0006412 "translation" evidence=IEA

CGD|CAL0001457 DPS1-1 [Candida albicans (taxid:5476)]

 Score = 731 (262.4 bits), Expect = 2.5e-72, P = 2.5e-72
 Identities = 167/385 (43%), Positives = 230/385 (59%)

Query:    59 PLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRP 118
             P   NYG +PL     +N        + +    + ++   N     + V  R RVH TR 
Sbjct:    90 PAKENYGKLPL-----INSSTRNADEKRIL---FKDLSVANDG---ETVTFRARVHKTRQ 138

Query:   119 VGNKLAFVVVRERVSTVQCLATVKPDS----VSKEMVRFVRSLSNEXXXXXXXXXXXXXX 174
              G  + F+ +R++   +Q L     D+    VSK+MV++  S++ E              
Sbjct:   139 QGATMVFLTLRQQSELIQALLKTNKDTDATAVSKQMVKWTGSINLESIVLVEGKVAKVEE 198

Query:   175 EIKGAT-QQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRL 232
             +IK AT Q VE+ I K+Y +    +  P+ IEDASRSE E E+       LP VN DTRL
Sbjct:   199 KIKSATVQDVEILISKIYTIQETPEQLPLLIEDASRSEKESEELG-----LPGVNLDTRL 253

Query:   233 NNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYK 292
             + RVID+RT  NQ IF+IQS V  +FR+FL+ + F EIHTPK+I  +SEGGS VF ++Y 
Sbjct:   254 DARVIDLRTPTNQAIFKIQSGVCQLFREFLIKKGFTEIHTPKIIGAASEGGSNVFEINYF 313

Query:   293 GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYS 352
               SA LAQSPQL+KQ  I  DF +VFE  PVFRAE+S THRH+ EFTGLD+EM  ++HY 
Sbjct:   314 KGSAFLAQSPQLYKQQLIAADFEKVFEIAPVFRAENSNTHRHMTEFTGLDLEMAFEQHYD 373

Query:   353 EVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP--KTLRLTFEEGVQMLKDA 410
             EV+++++ LFV IF  L     KE+  V KQ+P E  K     K ++L F+EG+ ML++A
Sbjct:   374 EVLEVLEELFVFIFTELKTRFSKEIATVRKQFPVEEFKIPKDGKMVKLHFKEGIAMLREA 433

Query:   411 GVEIDPLGDLNTESERKLGQLVLEK 435
             G E+D   DL+TE+E+ LG+LV EK
Sbjct:   434 GKEVDDFEDLSTENEKLLGKLVREK 458

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA

POMBASE|SPCC1223.07c drs1 "cytoplasmic aspartate-tRNA ligase Drs1 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 693 (249.0 bits), Expect = 7.6e-72, Sum P(2) = 7.6e-72
 Identities = 156/358 (43%), Positives = 216/358 (60%)

Query:    61 ANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVG 120
             A  YGD+PL              S A  GR +T++  ++     Q VL+R RV+T+R  G
Sbjct:    73 AGKYGDLPLNR------------STARPGRTYTQISDISAKNDGQTVLLRARVYTSRLQG 120

Query:   121 NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGAT 180
             NK+ F  +R++  T+Q LA V  D++SK+MV++  S+S E               IK AT
Sbjct:   121 NKMCFFSLRQKYDTIQALAVVNKDTISKQMVKWCGSISLESIVLVEGIVKKSPEIIKSAT 180

Query:   181 -QQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEI---EKASKEG-VQLPRVNQDTRLNN 234
              Q  E+ I  +Y +S   K  P  +EDA RSE +I   E+ + EG  +  RVN DTRL+N
Sbjct:   181 VQDAEIHISSIYVISPIKKNLPFLVEDAGRSEEQIRESEENAAEGDSKFVRVNLDTRLDN 240

Query:   235 RVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQ 294
             RV+D+RT  NQ IF IQ+ +   FR+FLLS +F EIHTPK+   SSEGGS VF++ Y   
Sbjct:   241 RVLDLRTPTNQAIFDIQAGICQAFREFLLSNSFNEIHTPKMSGASSEGGSNVFKIQYFKT 300

Query:   295 SACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEV 354
                L+QSPQL+KQM I  D  RVFE GPVFRAEDS T+RH+ EFTGLD+EM   +HY EV
Sbjct:   301 DGFLSQSPQLYKQMLIAADRERVFEIGPVFRAEDSNTYRHMTEFTGLDLEMAFNEHYHEV 360

Query:   355 MDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP-LKYKPKTLRLTFEEGVQMLKDAG 411
             M+ ++ LF+ IF ++     K++  V +QYP E  +      +R  F++ V++LK+AG
Sbjct:   361 MEFIEKLFLYIFKTIREKYAKQVAVVRQQYPSEDFILPDADRIRFHFKDAVKLLKEAG 418

GO:0002181 "cytoplasmic translation" evidence=NAS

GO:0004815 "aspartate-tRNA ligase activity" evidence=ISS

GO:0005524 "ATP binding" evidence=IC

GO:0005737 "cytoplasm" evidence=ISS

GO:0005829 "cytosol" evidence=IDA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IC

UNIPROTKB|P14868 DARS "Aspartate--tRNA ligase, cytoplasmic" [Homo sapiens (taxid:9606)]

 Score = 720 (258.5 bits), Expect = 3.7e-71, P = 3.7e-71
 Identities = 157/334 (47%), Positives = 216/334 (64%)

Query:   104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXX 163
             D+ V +R RVHT+R  G K  F+V+R++   VQ L  V  D  SK+MV+F  +++ E   
Sbjct:    57 DEVVWVRARVHTSRAKG-KQCFLVLRQQQFNVQALVAVG-DHASKQMVKFAANINKESIV 114

Query:   164 XXXXXXXXXXXEIKGATQQ-VEVQIKKLYCVSRAA-KTPITIEDASRSEAEIEKASKEGV 221
                        +I   TQQ VE+ ++K+Y +S A  + P+ ++DA R EAE E+   EG 
Sbjct:   115 DVEGVVRKVNQKIGSCTQQDVELHVQKIYVISLAEPRLPLQLDDAVRPEAEGEE---EG- 170

Query:   222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                 VNQDTRL+NRVID+RT  +Q +FR+QS + ++FR+ L+++ FVEI TPK+I+ +SE
Sbjct:   171 -RATVNQDTRLDNRVIDLRTSTSQAVFRLQSGICHLFRETLINKGFVEIQTPKIISAASE 229

Query:   282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
             GG+ VF + Y   +A LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GL
Sbjct:   230 GGANVFTVSYFKNNAYLAQSPQLYKQMCICADFEKVFSIGPVFRAEDSNTHRHLTEFVGL 289

Query:   342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
             D+EM    HY EVM+ +    V IF  L    + E++ V KQ+P EP K+   TLRL + 
Sbjct:   290 DIEMAFNYHYHEVMEEIADTMVQIFKGLQERFQTEIQTVNKQFPCEPFKFLEPTLRLEYC 349

Query:   402 EGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
             E + ML++AGVE+    DL+T +E+ LG LV EK
Sbjct:   350 EALAMLREAGVEMGDEDDLSTPNEKLLGHLVKEK 383

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA

GO:0004046 "aminoacylase activity" evidence=TAS

GO:0006412 "translation" evidence=TAS

GO:0006461 "protein complex assembly" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006418 "tRNA aminoacylation for protein translation" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

MGI|MGI:2442544 Dars "aspartyl-tRNA synthetase" [Mus musculus (taxid:10090)]

 Score = 716 (257.1 bits), Expect = 9.9e-71, P = 9.9e-71
 Identities = 158/335 (47%), Positives = 218/335 (65%)

Query:   104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXX 163
             D  V +R RVHT+R  G K  F+V+R++   VQ L  V  D  SK+MV+F  +++ E   
Sbjct:    57 DDVVWVRARVHTSRAKG-KQCFLVLRQQQFNVQALVAVG-DHASKQMVKFAANINKESII 114

Query:   164 XXXXXXXXXXXEIKGATQQ-VEVQIKKLYCVSRAA-KTPITIEDASRSEAEIEKASKEGV 221
                        +I   TQQ VE+ ++K+Y +S A  + P+ ++DA R E E E+  +   
Sbjct:   115 DVEGVVRKVNQKIGSCTQQDVELHVQKIYVISLAEPRLPLQLDDAIRPEVEGEEDGRA-- 172

Query:   222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                 VNQDTRL+NRVID+RT  +Q IFR+QS + ++FR+ L+++ FVEI TPK+I+ +SE
Sbjct:   173 ---TVNQDTRLDNRVIDLRTSTSQAIFRLQSGICHLFRETLINKGFVEIQTPKIISAASE 229

Query:   282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
             GG+ VF + Y   +A LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GL
Sbjct:   230 GGANVFTVSYFKNNAYLAQSPQLYKQMCICADFEKVFCIGPVFRAEDSNTHRHLTEFVGL 289

Query:   342 DVEMEIKKHYSEVMD-IVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTF 400
             D+EM    HY EV++ I D L V IF  L    + E++ V+KQ+P EP K+   TLRL +
Sbjct:   290 DIEMAFNYHYHEVVEEIADTL-VQIFKGLQERFQTEIQTVSKQFPCEPFKFLEPTLRLEY 348

Query:   401 EEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
              E + ML++AGVE+D   DL+T +E+ LG+LV EK
Sbjct:   349 CEALAMLREAGVEMDDEEDLSTPNEKLLGRLVKEK 383

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

UNIPROTKB|Q5ZJQ6 DARS "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 712 (255.7 bits), Expect = 2.6e-70, P = 2.6e-70
 Identities = 156/335 (46%), Positives = 216/335 (64%)

Query:   104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXX 163
             D+ V +RGRVHT+R  G K  F+V+R++   +Q L  V   + SK+MV+F  +++ E   
Sbjct:    59 DEVVWVRGRVHTSRAKG-KQCFLVLRQQQFNIQALVAVGQHA-SKQMVKFAANINKESIV 116

Query:   164 XXXXXXXXXXXEIKGATQQ-VEVQIKKLYCVSRAA-KTPITIEDASRSEAEIEKASKEGV 221
                        +I G TQQ VE+ ++++Y +S A  + P+ ++DA R E E E+  +   
Sbjct:   117 DVEGVVRKAHQKIGGCTQQDVELHVQRIYVISLAEPRLPLQLDDAVRPEVEGEEDGRA-- 174

Query:   222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                 VNQDTRL+NRVID+RT  +Q +F +QS +  +FR+ L+ + FVEI TPK+I+ +SE
Sbjct:   175 ---TVNQDTRLDNRVIDLRTSTSQAVFCLQSGICQLFRETLIRKGFVEIQTPKIISAASE 231

Query:   282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
             GG+ VF + Y   SA LAQSPQL+KQM IC DF +VF  GPVFRAEDS THRHL EF GL
Sbjct:   232 GGANVFTVSYFKSSAYLAQSPQLYKQMCICADFEKVFCVGPVFRAEDSNTHRHLTEFVGL 291

Query:   342 DVEMEIKKHYSEVMD-IVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTF 400
             D+EM    HY EV+D I D L V IF  L    + E++ V KQ+P EP K+   TLRL +
Sbjct:   292 DIEMAFNYHYHEVVDEIADTL-VQIFKGLQERFQAEIQMVNKQFPCEPFKFLEPTLRLEY 350

Query:   401 EEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
              E V ML++AG+E+    DL+T +E+ LG+LV EK
Sbjct:   351 REAVAMLREAGIEMGDEEDLSTPNEKLLGRLVKEK 385

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004815 "aspartate-tRNA ligase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006422 "aspartyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.1.1	0.766

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	435
PLN02850	530	PLN02850, PLN02850, aspartate-tRNA ligase	0.0
PTZ00401	550	PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Prov	1e-102
cd00776	322	cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/As	6e-91
PRK05159	437	PRK05159, aspC, aspartyl-tRNA synthetase; Provisio	5e-86
TIGR00458	428	TIGR00458, aspS_nondisc, nondiscriminating asparty	5e-86
COG0017	435	COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetas	1e-82
pfam00152	345	pfam00152, tRNA-synt_2, tRNA synthetases class II	3e-42
cd04320	102	cd04320, AspRS_cyto_N, AspRS_cyto_N: N-terminal, a	1e-41
PRK03932	450	PRK03932, asnC, asparaginyl-tRNA synthetase; Valid	3e-33
COG0173	585	COG0173, AspS, Aspartyl-tRNA synthetase [Translati	5e-33
TIGR00457	453	TIGR00457, asnS, asparaginyl-tRNA synthetase	8e-31
TIGR00459	583	TIGR00459, aspS_bact, aspartyl-tRNA synthetase, ba	1e-27
PRK00476	588	PRK00476, aspS, aspartyl-tRNA synthetase; Validate	1e-26
cd00669	269	cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA syn	8e-26
PRK06462	335	PRK06462, PRK06462, asparagine synthetase A; Revie	9e-24
PRK12820	706	PRK12820, PRK12820, bifunctional aspartyl-tRNA syn	1e-18
cd00777	280	cd00777, AspRS_core, Asp tRNA synthetase (aspRS) c	2e-17
PLN02903	652	PLN02903, PLN02903, aminoacyl-tRNA ligase	7e-17
cd04100	85	cd04100, Asp_Lys_Asn_RS_N, Asp_Lys_Asn_RS_N: N-ter	6e-14
PLN02502	553	PLN02502, PLN02502, lysyl-tRNA synthetase	7e-14
TIGR00499	496	TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukar	2e-13
cd00775	329	cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) c	1e-12
COG1190	502	COG1190, LysU, Lysyl-tRNA synthetase (class II) [T	2e-09
PRK12445	505	PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewe	1e-08
cd04317	135	cd04317, EcAspRS_like_N, EcAspRS_like_N: N-termina	3e-08
PTZ00385	659	PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisi	4e-08
PLN02221	572	PLN02221, PLN02221, asparaginyl-tRNA synthetase	9e-08
cd00768	211	cd00768, class_II_aaRS-like_core, Class II tRNA am	4e-07
cd04316	108	cd04316, ND_PkAspRS_like_N, ND_PkAspRS_like_N: N-t	6e-07
PLN02603	565	PLN02603, PLN02603, asparaginyl-tRNA synthetase	8e-07
PTZ00425	586	PTZ00425, PTZ00425, asparagine-tRNA ligase; Provis	8e-06
PRK00484	491	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	2e-05
pfam01336	75	pfam01336, tRNA_anti, OB-fold nucleic acid binding	4e-05
PLN02532	633	PLN02532, PLN02532, asparagine-tRNA synthetase	2e-04
PRK09537	417	PRK09537, pylS, pyrolysyl-tRNA synthetase; Reviewe	6e-04
PTZ00417	585	PTZ00417, PTZ00417, lysine-tRNA ligase; Provisiona	7e-04
PRK02983	1094	PRK02983, lysS, lysyl-tRNA synthetase; Provisional	0.002

>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase

 Score =  699 bits (1807), Expect = 0.0
 Identities = 294/426 (69%), Positives = 339/426 (79%), Gaps = 17/426 (3%)

Query: 11  QEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQ 70
           QE V+ S + ISKKAAKK AAK  K  R    EA A AA+A   +E+ PLA+NYGDVPL+
Sbjct: 3   QEAVEESGEKISKKAAKKAAAKAEKLRR----EATAKAAAASLEDEDDPLASNYGDVPLE 58

Query: 71  ELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRE 130
           ELQS            V+GREWT+V  L   L   EVLIRGRVHT R  G K AF+V+R+
Sbjct: 59  ELQS-----------KVTGREWTDVSDLGEELAGSEVLIRGRVHTIRGKG-KSAFLVLRQ 106

Query: 131 RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKL 190
              TVQC+  V   +VSK MV++ + LS ES+VDV GVVSVP   +KG TQQVE+Q++K+
Sbjct: 107 SGFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKKPVKGTTQQVEIQVRKI 166

Query: 191 YCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249
           YCVS+A  T P  +EDA+RSE+EIEKA + G QL RV QDTRLNNRV+D+RT ANQ IFR
Sbjct: 167 YCVSKALATLPFNVEDAARSESEIEKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAIFR 226

Query: 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMS 309
           IQSQV N+FR+FLLS+ FVEIHTPKLIAG+SEGGSAVFRLDYKGQ ACLAQSPQLHKQM+
Sbjct: 227 IQSQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRLDYKGQPACLAQSPQLHKQMA 286

Query: 310 ICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSL 369
           ICGDF RVFE GPVFRAEDS+THRHLCEFTGLD+EMEIK+HYSEV+D+VD LFV IFD L
Sbjct: 287 ICGDFRRVFEIGPVFRAEDSFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFDGL 346

Query: 370 NNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLG 429
           N  CKKELEA+ +QYPFEPLKY PKTLRLTF EG+QMLK+AGVE+DPLGDLNTESERKLG
Sbjct: 347 NERCKKELEAIREQYPFEPLKYLPKTLRLTFAEGIQMLKEAGVEVDPLGDLNTESERKLG 406

Query: 430 QLVLEK 435
           QLV EK
Sbjct: 407 QLVKEK 412

Length = 530

>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional

 Score =  314 bits (806), Expect = e-102
 Identities = 184/458 (40%), Positives = 258/458 (56%), Gaps = 67/458 (14%)

Query: 18  SQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDV----PLQELQ 73
           S + +   A     K++ +E RK A  A   A A    E+  L   Y DV    P+ +  
Sbjct: 2   SSNHADAGAPAVEKKQSDKEARKAARLAEEKARA---AEKAALVEKYKDVFGAAPMVQ-- 56

Query: 74  SVNDPQTGKWSEAVSGREWTEVGALNG-SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERV 132
                     S     R +  V  L+   L D+ VLIR RV TTR  G K+AF+V+R+  
Sbjct: 57  ----------STTYKSRTFIPVAVLSKPELVDKTVLIRARVSTTRKKG-KMAFMVLRDGS 105

Query: 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQ-VEVQIKKLY 191
            +VQ +A V+ D V KEM+ F+  +  ESIVDV   V   +  I   +   +E+++KK++
Sbjct: 106 DSVQAMAAVEGD-VPKEMIDFIGQIPTESIVDVEATVCKVEQPITSTSHSDIELKVKKIH 164

Query: 192 CVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI 250
            V+ + +T P T+EDASR E++      EG    +VN DTRLN+R +D+RT A+  IFR+
Sbjct: 165 TVTESLRTLPFTLEDASRKESD------EGA---KVNFDTRLNSRWMDLRTPASGAIFRL 215

Query: 251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSI 310
           QS+V   FRQFL+  +F EIH+PK+I   SEGG+ VF+L+Y  + A LAQSPQL+KQM +
Sbjct: 216 QSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKLEYFNRFAYLAQSPQLYKQMVL 275

Query: 311 CGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370
            GD  RVFE GPVFR+E+S THRHL EF GLDVEM I +HY EV+D+ + LF  IF+ L 
Sbjct: 276 QGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFNYIFERLA 335

Query: 371 NVCKKELEAVAKQYPFEPL-------------------------KYKPKT-------LRL 398
               KEL+AV +QYPFEPL                         KY+ +        LR+
Sbjct: 336 T-HTKELKAVCQQYPFEPLVWKLTPERMKELGVGVISEGVEPTDKYQARVHNMDSRMLRI 394

Query: 399 TFEEGVQMLKDAGVE-IDPLGDLNTESERKLGQLVLEK 435
            +   +++L     E + P  D+NT +E+ LG+LV E+
Sbjct: 395 NYMHCIELLNTVLEEKMAPTDDINTTNEKLLGKLVKER 432

Length = 550

>gnl|CDD|238399 cd00776, AsxRS_core, Asx tRNA synthetase (AspRS/AsnRS) class II core domain

 Score =  277 bits (712), Expect = 6e-91
 Identities = 96/213 (45%), Positives = 134/213 (62%), Gaps = 4/213 (1%)

Query: 225 RVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGS 284
             N +T L+NR +D+RT   Q IFRI+S+V   FR+FL    F E+HTPK+ +  +EGG+
Sbjct: 1   DANLETLLDNRHLDLRTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGA 60

Query: 285 AVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
            +F++ Y G+ A LAQSPQL+K+M I     RV+E GPVFRAE S T RHL EF  L+ E
Sbjct: 61  ELFKVSYFGKPAYLAQSPQLYKEMLIAA-LERVYEIGPVFRAEKSNTRRHLSEFWMLEAE 119

Query: 345 MEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404
           M   + Y+EVMD+++ L   IF  +   C KELE V  Q   E LK      R+T++E +
Sbjct: 120 MAFIEDYNEVMDLIEELIKYIFKRVLERCAKELELV-NQLNRELLKPLEPFPRITYDEAI 178

Query: 405 QMLKDAGV--EIDPLGDLNTESERKLGQLVLEK 435
           ++L++ GV  E+    DL+TE ER LG++V   
Sbjct: 179 ELLREKGVEEEVKWGEDLSTEHERLLGEIVKGD 211

Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Length = 322

>gnl|CDD|235354 PRK05159, aspC, aspartyl-tRNA synthetase; Provisional

 Score =  269 bits (690), Expect = 5e-86
 Identities = 121/331 (36%), Positives = 189/331 (57%), Gaps = 28/331 (8%)

Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
           +EV + G VH  R +G  +AF+++R+R   +Q    VK     +E+   ++ L  ES+V 
Sbjct: 17  EEVTLAGWVHEIRDLG-GIAFLILRDRSGIIQV--VVKKKVD-EELFETIKKLKRESVVS 72

Query: 165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLP 224
           V G V         A   VEV  +++  +++A + P+ ++ + +  AE+           
Sbjct: 73  VTGTV----KANPKAPGGVEVIPEEIEVLNKA-EEPLPLDISGKVLAEL----------- 116

Query: 225 RVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGS 284
               DTRL+NR +D+R    + IF+I+S+V   FR+FL    F EI TPK++A  +EGG+
Sbjct: 117 ----DTRLDNRFLDLRRPRVRAIFKIRSEVLRAFREFLYENGFTEIFTPKIVASGTEGGA 172

Query: 285 AVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
            +F +DY  + A LAQSPQL+KQM +   F RVFE GPVFRAE+  T RHL E+T +DVE
Sbjct: 173 ELFPIDYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNTSRHLNEYTSIDVE 232

Query: 345 MEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404
           M     + +VMD+++ L   +++ +   C+KELE +  + P           R+T++E +
Sbjct: 233 MGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIELPVPETPIP----RITYDEAI 288

Query: 405 QMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           ++LK  G EI    DL+TE ER LG+ V E+
Sbjct: 289 EILKSKGNEISWGDDLDTEGERLLGEYVKEE 319

Length = 437

>gnl|CDD|129550 TIGR00458, aspS_nondisc, nondiscriminating aspartyl-tRNA synthetase

 Score =  268 bits (688), Expect = 5e-86
 Identities = 122/327 (37%), Positives = 184/327 (56%), Gaps = 30/327 (9%)

Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
           QEV   G VH  R +G  L FV++R+R   +Q   T     VSK + ++ + L+ ES+V 
Sbjct: 13  QEVTFMGWVHEIRDLG-GLIFVLLRDREGLIQ--ITAPAKKVSKNLFKWAKKLNLESVVA 69

Query: 165 VIGVVSVPDVEIKGAT-QQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQL 223
           V G+V     +IK       E+   K+  ++  AK P+ ++   +  AE+          
Sbjct: 70  VRGIV-----KIKEKAPGGFEIIPTKIEVIN-EAKEPLPLDPTEKVPAEL---------- 113

Query: 224 PRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGG 283
                DTRL+ R +D+R    Q IFRI+S V    R+FL  E F+E+HTPKL+A ++EGG
Sbjct: 114 -----DTRLDYRFLDLRRPTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGG 168

Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
           + +F + Y  + A L QSPQL+KQ  +   F RV+E GP+FRAE+  THRHL E T +D+
Sbjct: 169 TELFPITYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDI 228

Query: 344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEG 403
           EM  + H  +VMDI++ L V +F+ +   C  +LE +  +      K+     RLT++E 
Sbjct: 229 EMAFEDH-HDVMDILEELVVRVFEDVPERCAHQLETLEFKLEKPEGKFV----RLTYDEA 283

Query: 404 VQMLKDAGVEIDPLGDLNTESERKLGQ 430
           ++M    GVEI    DL+TE+E+ LG+
Sbjct: 284 IEMANAKGVEIGWGEDLSTEAEKALGE 310

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn) [Protein synthesis, tRNA aminoacylation]. Length = 428

>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]

 Score =  260 bits (666), Expect = 1e-82
 Identities = 109/327 (33%), Positives = 165/327 (50%), Gaps = 31/327 (9%)

Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
           QEV +RG VH  R +G K+ F+V+R+    +Q    V  + V +E+ +  + L+ ES V 
Sbjct: 17  QEVTVRGWVHNKRDLG-KIIFLVLRDGSGFIQA--VVPKNKVYEELFKA-KKLTLESSVV 72

Query: 165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQL 223
           V G+V         A Q  E+Q++K+  +  A    PI  ++                  
Sbjct: 73  VTGIV----KASPKAPQGFELQVEKIEVLGEADPPYPIDKKE------------------ 110

Query: 224 PRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGG 283
                +T L+NR +D+RT   Q +F+I+S +    R+F     F E+HTP + A ++EGG
Sbjct: 111 -HSELETLLDNRHLDLRTPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGG 169

Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
             +F++DY  + A L QSPQL+K+        RVF  GP FRAE S T RHL EF  LD 
Sbjct: 170 GELFKVDYFDKEAYLTQSPQLYKEALAAA-LERVFTIGPTFRAEKSNTRRHLSEFWMLDP 228

Query: 344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEG 403
           EM      ++VMD+ + L   +F  +   C  ELE + +              R+T++E 
Sbjct: 229 EMAFADL-NDVMDLAEELIKYLFKKVLEECADELEFLGRDNSELKRPESAPFPRITYKEA 287

Query: 404 VQMLKDAGVEIDPLG-DLNTESERKLG 429
           +++L++ G E    G DL TE ER LG
Sbjct: 288 IEILEEKGFEKVEWGDDLGTEHERYLG 314

Length = 435

>gnl|CDD|215753 pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N)

 Score =  151 bits (385), Expect = 3e-42
 Identities = 61/196 (31%), Positives = 96/196 (48%), Gaps = 14/196 (7%)

Query: 227 NQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAV 286
           +++TRL  R +D+R    Q   +++S++    R+FL    F+E+ TP L   + EGG+  
Sbjct: 1   SEETRLKYRYLDLRRPKMQANLKLRSKIIKAIREFLDERGFLEVETPILTKSTPEGGARD 60

Query: 287 FRLDYK--GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
           F +  K   + A L QSPQL+KQ+ +   F RVF+  P FR ED  T RH  EFT LD+E
Sbjct: 61  FLVPSKFYAKEAYLPQSPQLYKQLLMVAGFDRVFQIAPCFRDEDLRTDRHPPEFTQLDLE 120

Query: 345 MEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404
           M     Y +VMD+ + L   +F  +    ++      +   F          R+T+ E +
Sbjct: 121 MSFVD-YEDVMDLTEDLIKYVFKKVLGKREELELLGIELPEFP---------RITYAEAI 170

Query: 405 QMLKDAGVEIDPLGDL 420
           +       + D    L
Sbjct: 171 ERYG--SDKPDLRFGL 184

Length = 345

>gnl|CDD|239815 cd04320, AspRS_cyto_N, AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS)

 Score =  142 bits (360), Expect = 1e-41
 Identities = 53/102 (51%), Positives = 70/102 (68%), Gaps = 2/102 (1%)

Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV 165
           EVLIR RVHT+R  G KLAF+V+R++  T+Q +     + VSK+MV++  SLS ESIVDV
Sbjct: 1   EVLIRARVHTSRAQGAKLAFLVLRQQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDV 60

Query: 166 IGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRAAKT-PITIED 205
            G V  P+  IK  TQQ VE+ I+K+Y VS AA+  P  +ED
Sbjct: 61  EGTVKKPEEPIKSCTQQDVELHIEKIYVVSEAAEPLPFQLED 102

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Length = 102

>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated

 Score =  129 bits (327), Expect = 3e-33
 Identities = 92/352 (26%), Positives = 146/352 (41%), Gaps = 51/352 (14%)

Query: 97  ALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRS 156
            L G    QEV +RG V T R  G K+AF+ +R+     Q            E    ++ 
Sbjct: 9   ILKGKYVGQEVTVRGWVRTKRDSG-KIAFLQLRDGSCFKQLQVVKDNGE---EYFEEIKK 64

Query: 157 LSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEK 215
           L+  S V V G V    VE   A Q  E+Q  K+  +    +  PI  +  S        
Sbjct: 65  LTTGSSVIVTGTV----VESPRAGQGYELQATKIEVIGEDPEDYPIQKKRHSI------- 113

Query: 216 ASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKL 275
                        +       +  RT     + RI++ +     +F     FV + TP +
Sbjct: 114 -------------EFLREIAHLRPRTNKFGAVMRIRNTLAQAIHEFFNENGFVWVDTPII 160

Query: 276 IAGSSEGGSAVFRL---------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA 326
            A   EG   +FR+         D+ G+ A L  S QL+ +       G+V+  GP FRA
Sbjct: 161 TASDCEGAGELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEAYAMA-LGKVYTFGPTFRA 219

Query: 327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDS-LNNVCKKELEAVAKQYP 385
           E+S T RHL EF  ++ EM       + MD+ + +   +    L N C  +LE + ++  
Sbjct: 220 ENSNTRRHLAEFWMIEPEMAFADL-EDNMDLAEEMLKYVVKYVLEN-CPDDLEFLNRRVD 277

Query: 386 ---FEPLK--YKPKTLRLTFEEGVQMLKDAGVEIDPL---G-DLNTESERKL 428
               E L+   +    R+T+ E +++L+ +G + +     G DL +E ER L
Sbjct: 278 KGDIERLENFIESPFPRITYTEAIEILQKSGKKFEFPVEWGDDLGSEHERYL 329

Length = 450

>gnl|CDD|223251 COG0173, AspS, Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

 Score =  130 bits (330), Expect = 5e-33
 Identities = 86/308 (27%), Positives = 132/308 (42%), Gaps = 48/308 (15%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L  S   Q V + G VH  R  G  L F+ +R+R   VQ +        S E      
Sbjct: 7   GELRESHVGQTVTLSGWVHRRRDHG-GLIFIDLRDREGIVQVVFD---PEDSPEAFEVAS 62

Query: 156 SLSNESIVDVIGVVSV-PDVEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
            L NE ++ V G V   P+  I     T ++EV  +++  ++ +   P  IED       
Sbjct: 63  RLRNEFVIQVTGTVRARPEGTINPNLPTGEIEVLAEEIEVLNASKTLPFQIEDE------ 116

Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
                         +++ RL  R +D+R    Q   +++S+V    R FL  + F+EI T
Sbjct: 117 -----------TNASEEIRLKYRYLDLRRPEMQKNLKLRSKVTKAIRNFLDDQGFLEIET 165

Query: 273 PKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
           P L   + EG     R D+        G+   L QSPQL KQ+ +   F R ++    FR
Sbjct: 166 PILTKSTPEGA----R-DFLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFR 220

Query: 326 AEDSYTHRHLCEFTGLDVEME-IKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY 384
            ED    R   EFT +D+EM  + +   +VM++++ L   +F     V   EL+      
Sbjct: 221 DEDLRADRQP-EFTQIDLEMSFVDEE--DVMELIEKLLRYVF---KEVKGIELKT----- 269

Query: 385 PFEPLKYK 392
           PF  + Y 
Sbjct: 270 PFPRMTYA 277

Length = 585

>gnl|CDD|232982 TIGR00457, asnS, asparaginyl-tRNA synthetase

 Score =  122 bits (309), Expect = 8e-31
 Identities = 81/344 (23%), Positives = 147/344 (42%), Gaps = 44/344 (12%)

Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
              EV + G V T R    K+ F+ + +  S++  +  V     +  + + ++SL+  S 
Sbjct: 15  VGDEVTVSGWVRTKRSSK-KIIFLELNDG-SSLGPIQAVINGEDNPYLFQLLKSLTTGSS 72

Query: 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQ 222
           V V G V    VE  G  Q VE+Q+KK+  V  A      +                  Q
Sbjct: 73  VSVTGKV----VESPGKGQPVELQVKKIEVVGEAEPDDYPL------------------Q 110

Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
               + +   +   + +RT     + R+++ +     ++     F  +  P L +   EG
Sbjct: 111 KKEHSLEFLRDIAHLRLRTNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPILTSNDCEG 170

Query: 283 GSAVFRL---------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHR 333
              +FR+         D+ G+ A L  S QL+ +        +V+  GP FRAE S T R
Sbjct: 171 AGELFRVSTGNIDFSQDFFGKEAYLTVSGQLYLETYALA-LSKVYTFGPTFRAEKSNTSR 229

Query: 334 HLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP 393
           HL EF  ++ EM      ++++ + + L   I  ++   C +EL+ + K +  + +K   
Sbjct: 230 HLSEFWMIEPEMAFAN-LNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLE 288

Query: 394 KTL-----RLTFEEGVQMLKDAG--VEIDPL--GDLNTESERKL 428
             +     R+T+ + +++LK++    E +     DL TE ER L
Sbjct: 289 NIINNKFARITYTDAIEILKESDKNFEYEDFWGDDLQTEHERFL 332

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn [Protein synthesis, tRNA aminoacylation]. Length = 453

>gnl|CDD|211576 TIGR00459, aspS_bact, aspartyl-tRNA synthetase, bacterial type

 Score =  115 bits (289), Expect = 1e-27
 Identities = 79/308 (25%), Positives = 131/308 (42%), Gaps = 49/308 (15%)

Query: 95  VGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV 154
            G L      Q V + G V+  R +G  L F+ +R+R   VQ      PD+ + ++ + +
Sbjct: 6   CGQLRTEHLGQTVTLAGWVNRRRDLG-GLIFIDLRDRSGIVQ--VVCDPDADALKLAKGL 62

Query: 155 RSLSNESIVDVIGVVSVPDVEIKG---ATQQVEVQIKKLYCVSRAAKTPITIEDASRSEA 211
           R   NE +V V G VS            T ++E+  + +  ++++   P+ IE       
Sbjct: 63  R---NEDVVQVKGKVSARPEGNINRNLDTGEIEILAESITLLNKSKTPPLIIEKTD---- 115

Query: 212 EIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIH 271
                           ++ RL  R +D+R    Q   +++ +V    R FL  + F+EI 
Sbjct: 116 --------------AEEEVRLKYRYLDLRRPEMQQRLKLRHKVTKAVRNFLDQQGFLEIE 161

Query: 272 TPKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVF 324
           TP L   + EG       DY       KG+   L QSPQL KQ+ +     R ++    F
Sbjct: 162 TPMLTKSTPEGAR-----DYLVPSRVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCF 216

Query: 325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY 384
           R ED    R   EFT +D+EM       +VM++++ L   +F         E++ +  + 
Sbjct: 217 RDEDLRADRQ-PEFTQIDMEMSFMTQ-EDVMELIEKLVSHVF--------LEVKGIDLKK 266

Query: 385 PFEPLKYK 392
           PF  + Y 
Sbjct: 267 PFPVMTYA 274

Asparate--tRNA ligases in this family may be discriminating (6.1.1.12) or nondiscriminating (6.1.1.23). In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences [Protein synthesis, tRNA aminoacylation]. Length = 583

>gnl|CDD|234775 PRK00476, aspS, aspartyl-tRNA synthetase; Validated

 Score =  112 bits (282), Expect = 1e-26
 Identities = 92/322 (28%), Positives = 141/322 (43%), Gaps = 67/322 (20%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L  S   Q V + G VH  R  G  L F+ +R+R   VQ      PD+ + E+     
Sbjct: 9   GELRESHVGQTVTLCGWVHRRRDHGG-LIFIDLRDREGIVQV--VFDPDAEAFEVAE--- 62

Query: 156 SLSNESIVDVIGVVSV-PDVEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
           SL +E ++ V G V   P+  +     T ++EV   +L  ++++   P  I+D      E
Sbjct: 63  SLRSEYVIQVTGTVRARPEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDD------E 116

Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
            +           V+++ RL  R +D+R    Q   +++S+V +  R FL    F+EI T
Sbjct: 117 ED-----------VSEELRLKYRYLDLRRPEMQKNLKLRSKVTSAIRNFLDDNGFLEIET 165

Query: 273 PKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
           P L   + EG  A  R DY        G+   L QSPQL KQ+ +   F R ++    FR
Sbjct: 166 PILTKSTPEG--A--R-DYLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFR 220

Query: 326 AEDSYTHRHLCEFTGLDVEMEIKKHYS-----EVMDIVDCLFVTIFDSLNNVCKKELEAV 380
            ED    R   EFT +D+EM      S     +VM +++ L   +F  +  V   +L   
Sbjct: 221 DEDLRADRQP-EFTQIDIEM------SFVTQEDVMALMEGLIRHVFKEVLGV---DLPT- 269

Query: 381 AKQYPFEPLKYKPKTLRLTFEE 402
               PF          R+T+ E
Sbjct: 270 ----PFP---------RMTYAE 278

Length = 588

>gnl|CDD|238358 cd00669, Asp_Lys_Asn_RS_core, Asp_Lys_Asn_tRNA synthetase class II core domain

 Score =  105 bits (263), Expect = 8e-26
 Identities = 45/162 (27%), Positives = 71/162 (43%), Gaps = 11/162 (6%)

Query: 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSACLAQSPQLH 305
           F+++S++    R F+    F+E+ TP L   +   G+  F + Y   G    L  SPQL 
Sbjct: 1   FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLF 60

Query: 306 KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI 365
           K+  + G   RVFE    FR ED    RH  EFT +D+EM     Y +V+++ + L   +
Sbjct: 61  KKRLMVGGLDRVFEINRNFRNEDL-RARHQPEFTMMDLEMAFAD-YEDVIELTERLVRHL 118

Query: 366 FDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQML 407
              +  V              +     P   RLT+ E ++  
Sbjct: 119 AREVLGVTAVTYG----FELEDFGLPFP---RLTYREALERY 153

This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. Length = 269

>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed

 Score =  100 bits (252), Expect = 9e-24
 Identities = 60/191 (31%), Positives = 91/191 (47%), Gaps = 15/191 (7%)

Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTP-------KLIAGSSEGGSAVFRLDYKGQSACLA 299
           + ++QS +    R+FL    FVE+  P        L+   S+       +D+ G    LA
Sbjct: 29  VLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVEYYLA 88

Query: 300 QSPQLHKQMSICGDFGRVFETGPVFRAE--DSYTHRHLCEFTGLDVEMEIKKHYSEVMDI 357
            S  LHKQ+++    G++F   P FR E  D  T RHL EFT LD+E+E      EVMD+
Sbjct: 89  DSMILHKQLAL-RMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIE-GADLDEVMDL 146

Query: 358 VDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPL 417
           ++ L   +   L    + ELE   +  P      K    R+T +E V++L + G     L
Sbjct: 147 IEDLIKYLVKELLEEHEDELEFFGRDLP----HLKRPFKRITHKEAVEILNEEGCRGIDL 202

Query: 418 GDLNTESERKL 428
            +L +E E+ L
Sbjct: 203 EELGSEGEKSL 213

Length = 335

>gnl|CDD|105955 PRK12820, PRK12820, bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional

 Score = 88.1 bits (218), Expect = 1e-18
 Identities = 81/259 (31%), Positives = 115/259 (44%), Gaps = 25/259 (9%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L+     +EV + G V   R  G  L F+ +R+R   +Q  A   P++   ++     
Sbjct: 10  GHLSLDDTGREVCLAGWVDAFRDHGELL-FIHLRDRNGFIQ--AVFSPEAAPADVYELAA 66

Query: 156 SLSNESIVDVIGVVSV-------PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASR 208
           SL  E  V + G V         P +E    T  +EV +++L  ++ +   P  I D   
Sbjct: 67  SLRAEFCVALQGEVQKRLEETENPHIE----TGDIEVFVRELSILAASEALPFAISD--- 119

Query: 209 SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFV 268
            +A    A   G     VN+D RL  R +DIR  A Q     + ++    R FL S  F+
Sbjct: 120 -KAMTAGAGSAGAD--AVNEDLRLQYRYLDIRRPAMQDHLAKRHRIIKCARDFLDSRGFL 176

Query: 269 EIHTPKLIAGSSEGGSAVF---RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
           EI TP L   + EG        R+  K   A L QSPQL KQ+ +   F R F+    FR
Sbjct: 177 EIETPILTKSTPEGARDYLVPSRIHPKEFYA-LPQSPQLFKQLLMIAGFERYFQLARCFR 235

Query: 326 AEDSYTHRHLCEFTGLDVE 344
            ED   +R   EFT LD+E
Sbjct: 236 DEDLRPNRQ-PEFTQLDIE 253

Length = 706

>gnl|CDD|238400 cd00777, AspRS_core, Asp tRNA synthetase (aspRS) class II core domain

 Score = 81.9 bits (203), Expect = 2e-17
 Identities = 50/150 (33%), Positives = 73/150 (48%), Gaps = 18/150 (12%)

Query: 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVF----RLDYKGQSACLAQSPQ 303
            R++S+V    R FL  + FVEI TP L   S+  G+  F    RL + G+   L QSPQ
Sbjct: 1   LRLRSRVIKAIRNFLDEQGFVEIETPILTK-STPEGARDFLVPSRL-HPGKFYALPQSPQ 58

Query: 304 LHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEME-IKKHYSEVMDIVDCLF 362
           L KQ+ +   F R F+    FR ED    R   EFT +D+EM  + +   ++M +++ L 
Sbjct: 59  LFKQLLMVSGFDRYFQIARCFRDEDLRADRQ-PEFTQIDIEMSFVDQE--DIMSLIEGLL 115

Query: 363 VTIFDSLNNVCKKELEAVAKQYPFEPLKYK 392
             +F  +  V   EL       PF  + Y 
Sbjct: 116 KYVFKEVLGV---EL-----TTPFPRMTYA 137

Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain. Length = 280

>gnl|CDD|215490 PLN02903, PLN02903, aminoacyl-tRNA ligase

 Score = 82.5 bits (204), Expect = 7e-17
 Identities = 91/323 (28%), Positives = 126/323 (39%), Gaps = 60/323 (18%)

Query: 91  EWTEVGALNGSLKDQ----EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSV 146
            W     L G+L        V + G V   R +G  L F+ VR+    VQ      PD  
Sbjct: 55  TWPSRSHLCGALSVNDVGSRVTLCGWVDLHRDMGG-LTFLDVRDHTGIVQ--VVTLPDE- 110

Query: 147 SKEMVRFVRSLSNESIVDVIGVV---SVPDVEIKGATQQVEV---QIKKLYCVSRAAKTP 200
             E  R    L NE +V V G V          K  T  VEV    +  L  V+++    
Sbjct: 111 FPEAHRTANRLRNEYVVAVEGTVRSRPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFL 170

Query: 201 ITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQ 260
           +T        A+ +K          + ++ RL  RV+D+R        R++ +V  + R+
Sbjct: 171 VT-------TADEQK--------DSIKEEVRLRYRVLDLRRPQMNANLRLRHRVVKLIRR 215

Query: 261 FLLS-ENFVEIHTPKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICG 312
           +L     FVEI TP L   + EG       DY        G    L QSPQL KQM +  
Sbjct: 216 YLEDVHGFVEIETPILSRSTPEGA-----RDYLVPSRVQPGTFYALPQSPQLFKQMLMVS 270

Query: 313 DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNN- 371
            F R ++    FR ED    R   EFT LD+E+           + D L       LN  
Sbjct: 271 GFDRYYQIARCFRDEDLRADRQ-PEFTQLDMELAF-------TPLEDML------KLNED 316

Query: 372 -VCK--KELEAVAKQYPFEPLKY 391
            + +  KE++ V    PF  L Y
Sbjct: 317 LIRQVFKEIKGVQLPNPFPRLTY 339

Length = 652

>gnl|CDD|239766 cd04100, Asp_Lys_Asn_RS_N, Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs)

 Score = 66.8 bits (164), Expect = 6e-14
 Identities = 28/90 (31%), Positives = 42/90 (46%), Gaps = 5/90 (5%)

Query: 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV 165
           EV + G VH+ R  G  L F+ +R+    VQ +          E       L  ES+V V
Sbjct: 1   EVTLAGWVHSRRDHG-GLIFIDLRDGSGIVQVVV---NKEELGEFFEEAEKLRTESVVGV 56

Query: 166 IGVVSVPDVEIKGATQQVEVQIKKLYCVSR 195
            G V V   E   AT ++E+Q ++L  +S+
Sbjct: 57  TGTV-VKRPEGNLATGEIELQAEELEVLSK 85

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like AspRSs which are non-discriminating and can charge both tRNAAsp and tRNAAsn. E. coli cells have two isoforms of LysRSs (LysS and LysU) encoded by two distinct genes, which are differentially regulated. The cytoplasmic and the mitochondrial isoforms of human LysRS are encoded by a single gene. Yeast cytoplasmic and mitochondrial LysRSs participate in mitochondrial import of cytoplasmic tRNAlysCUU. In addition to their housekeeping role, human LysRS may function as a signaling molecule that activates immune cells. Tomato LysRS may participate in a process possibly connected to conditions of oxidative-stress conditions or heavy metal uptake. It is known that human tRNAlys and LysRS are specifically packaged into HIV-1 suggesting a role for LysRS in tRNA packaging. AsnRS is immunodominant antigen of the filarial nematode Brugia malayai and is of interest as a target for anti-parasitic drug design. Human AsnRS has been shown to be a pro-inflammatory chemokine which interacts with CCR3 chemokine receptors on T cells, immature dendritic cells and macrophages. Length = 85

>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase

 Score = 73.1 bits (180), Expect = 7e-14
 Identities = 97/370 (26%), Positives = 160/370 (43%), Gaps = 60/370 (16%)

Query: 15  DSSSQSISKKAAKKE--AAKKAKEERRKEAEAAASAASALSIEEEGPLA--------NNY 64
           +S+ + +SK A KK   A +  +E+  KE   AA+AA+A         A          Y
Sbjct: 2   ESNGEPLSKNALKKRLKAKQAEEEKAAKEEAKAAAAAAAAKGRSRKSAAADDETMDPTQY 61

Query: 65  GDVPLQELQSV----NDPQTGKWSEAVSGREWTEV-GAL-NGS-LKDQEVLIRGRVHTTR 117
               L++++++     +P   K+    +  E  E  G+L NG  L+D  V + GR+   R
Sbjct: 62  RANRLKKVEALRAKGVEPYPYKFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKR 121

Query: 118 PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK 177
             G KLAF  +R+    +Q  A  K   +  +   F +  S     D++GV   P     
Sbjct: 122 AFG-KLAFYDLRDDGGKIQLYADKK--RLDLDEEEFEKLHSLVDRGDIVGVTGTP----- 173

Query: 178 GATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPR-----VNQDTRL 232
           G T++ E+ I      +                   E  +K  + LP       +Q+TR 
Sbjct: 174 GKTKKGELSI----FPT-----------------SFEVLTKCLLMLPDKYHGLTDQETRY 212

Query: 233 NNRVIDIRTLAN---QGIFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVF 287
             R +D+  +AN   + IFR ++++ +  R+FL    F+E+ TP L  IAG +     V 
Sbjct: 213 RQRYLDL--IANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVT 270

Query: 288 RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI 347
             +       L  + +LH +  + G F RV+E G  FR E   T RH  EFT  +     
Sbjct: 271 HHNDLNMDLYLRIATELHLKRLVVGGFERVYEIGRQFRNEGIST-RHNPEFTTCEFYQAY 329

Query: 348 KKHYSEVMDI 357
              Y+++M++
Sbjct: 330 AD-YNDMMEL 338

Length = 553

>gnl|CDD|232998 TIGR00499, lysS_bact, lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial

 Score = 71.2 bits (175), Expect = 2e-13
 Identities = 91/383 (23%), Positives = 154/383 (40%), Gaps = 65/383 (16%)

Query: 61  ANNYGDVPLQEL----QSVNDPQTGKWSEAVSGREWTE----VGALNGSLKDQEVLIRGR 112
            N+      ++L    Q+ NDP   K+    S +E+ E    +       K+ EV I GR
Sbjct: 2   LNDQLQTRREKLARLRQTGNDPYLNKFERTHSSQEFQEEYADLSNEELEDKNIEVSIAGR 61

Query: 113 VHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172
           +   R    K  F+ +++    +Q    V  D + ++   F   L +  + D+IGV   P
Sbjct: 62  IMARR-SMGKATFITLQDESGQIQLY--VNKDDLPEDFYEFDEYLLD--LGDIIGVTGYP 116

Query: 173 DVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRL 232
               K  T ++ V + +L  +++A +      D              G+     +Q+TR 
Sbjct: 117 ---FKTKTGELSVHVTELQILTKALRPL---PDKFH-----------GLT----DQETRY 155

Query: 233 NNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFR--- 288
             R +D I    ++  F ++S++    R+FL    F+E+ TP L       G A  R   
Sbjct: 156 RQRYLDLIVNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPML---QVIPGGANARPFI 212

Query: 289 -----LD---YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTG 340
                LD   Y      L  +P+L+ +  I G F +V+E G  FR E      H  EFT 
Sbjct: 213 THHNALDMDLY------LRIAPELYLKRLIVGGFEKVYEIGRNFRNE-GVDTTHNPEFTM 265

Query: 341 LDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTF 400
           ++        Y ++MD+ + LF  +   L    K         Y    + +K    R+T 
Sbjct: 266 IEFYQAYAD-YEDLMDLTENLFKFLAQELLGTTK-------ITYGELEIDFKKPFKRITM 317

Query: 401 EEGVQML-KDAGVEIDPLGDLNT 422
            E ++    + G++ D L D  T
Sbjct: 318 VEAIKKYDMETGIDFDDLKDFET 340

This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms [Protein synthesis, tRNA aminoacylation]. Length = 496

>gnl|CDD|238398 cd00775, LysRS_core, Lys_tRNA synthetase (LysRS) class II core domain

 Score = 68.4 bits (168), Expect = 1e-12
 Identities = 49/191 (25%), Positives = 84/191 (43%), Gaps = 29/191 (15%)

Query: 248 FRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSA--------VFRLDYKGQSAC 297
           F ++S++ +  R+FL    F+E+ TP L  IAG   G +A           +D       
Sbjct: 8   FIVRSKIISYIRKFLDDRGFLEVETPMLQPIAG---GAAARPFITHHNALDMDLY----- 59

Query: 298 LAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDI 357
           L  +P+L+ +  I G F RV+E G  FR E      H  EFT ++        Y+++MD+
Sbjct: 60  LRIAPELYLKRLIVGGFERVYEIGRNFRNE-GIDLTHNPEFTMIEFYEAYAD-YNDMMDL 117

Query: 358 VDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPL 417
            + LF  +   +  +  K       +Y  + L + P   R+T  + ++  +  G++   L
Sbjct: 118 TEDLFSGL---VKKINGKT----KIEYGGKELDFTPPFKRVTMVDALK--EKTGIDFPEL 168

Query: 418 GDLNTESERKL 428
                E   KL
Sbjct: 169 DLEQPEELAKL 179

Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Length = 329

>gnl|CDD|224111 COG1190, LysU, Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

 Score = 59.1 bits (144), Expect = 2e-09
 Identities = 52/205 (25%), Positives = 85/205 (41%), Gaps = 28/205 (13%)

Query: 228 QDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGS 284
           ++ R   R +D I    ++  F  +S++    R+FL    F+E+ TP L  I G   G +
Sbjct: 159 KEIRYRQRYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPG---GAA 215

Query: 285 A-VFRLDYKGQSACLAQ--SPQLHKQMSICGDFGRVFETGPVFRAED-SYTHRHLCEFTG 340
           A  F   +      L    +P+L+ +  I G F RVFE G  FR E    TH    EFT 
Sbjct: 216 ARPFITHHNALDMDLYLRIAPELYLKRLIVGGFERVFEIGRNFRNEGIDTTHNP--EFTM 273

Query: 341 LD---VEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLR 397
           L+      +    Y ++MD+ + L   +   +N             Y  + + +     R
Sbjct: 274 LEFYQAYAD----YEDLMDLTEELIKELAKEVNG-------TTKVTYGGQEIDFSKPFKR 322

Query: 398 LTFEEGVQMLKDAGVEIDPLGDLNT 422
           +T  + ++     GV+ D L D   
Sbjct: 323 ITMVDALKE--YLGVDFDDLFDDEE 345

Length = 502

>gnl|CDD|171504 PRK12445, PRK12445, lysyl-tRNA synthetase; Reviewed

 Score = 56.6 bits (136), Expect = 1e-08
 Identities = 47/181 (25%), Positives = 86/181 (47%), Gaps = 14/181 (7%)

Query: 227 NQDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP--KLIAGSSEGG 283
           +Q+ R   R +D I    ++  F ++S++    RQF+++  F+E+ TP  ++I G +   
Sbjct: 162 DQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASAR 221

Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
             +   +       L  +P+L+ +  + G F RVFE    FR E   + RH  EFT +++
Sbjct: 222 PFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNE-GISVRHNPEFTMMEL 280

Query: 344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY--PFEPL-------KYKPK 394
            M     Y +++++ + LF T+   +    K         +  PFE L       KY+P+
Sbjct: 281 YMAYAD-YHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYRPE 339

Query: 395 T 395
           T
Sbjct: 340 T 340

Length = 505

>gnl|CDD|239812 cd04317, EcAspRS_like_N, EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS

 Score = 51.8 bits (125), Expect = 3e-08
 Identities = 40/148 (27%), Positives = 60/148 (40%), Gaps = 25/148 (16%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L  S   QEV + G V   R  G  L F+ +R+R   VQ +    P+           
Sbjct: 6   GELRESHVGQEVTLCGWVQRRRDHG-GLIFIDLRDRYGIVQVV--FDPEE--APEFELAE 60

Query: 156 SLSNESIVDVIGVVSV---PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
            L NES++ V G V       V  K  T ++EV   +L  +++A   P  I+D       
Sbjct: 61  KLRNESVIQVTGKVRARPEGTVNPKLPTGEIEVVASELEVLNKAKTLPFEIDDDV----- 115

Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIR 240
                        V+++ RL  R +D+R
Sbjct: 116 ------------NVSEELRLKYRYLDLR 131

These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with mitochondrial protein synthesis. Human mtAspRS participates in mitochondrial biosynthesis; this enzyme been shown to charge E.coli native tRNAsp in addition to in vitro transcribed human mitochondrial tRNAsp. T. thermophilus is rare among bacteria in having both a D_AspRS and a ND_AspRS. H.pylori ND-AspRS can charge both tRNAASp and tRNAAsn, it is fractionally more efficient at aminoacylating tRNAAsp over tRNAAsn. The H.pylori genome does not contain AsnRS. Length = 135

>gnl|CDD|185588 PTZ00385, PTZ00385, lysyl-tRNA synthetase; Provisional

 Score = 55.0 bits (132), Expect = 4e-08
 Identities = 87/415 (20%), Positives = 154/415 (37%), Gaps = 75/415 (18%)

Query: 21  ISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQT 80
           ISK +A K   ++A    R + +  A+ +S   I     +   YG +            +
Sbjct: 53  ISKASATKTVTQEASRAPRSKLDLPAAYSSFRGITPISEVRERYGYL-----------AS 101

Query: 81  GKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLAT 140
           G  +   + R                  + GRV + R +G K+ FV +R   + +Q +  
Sbjct: 102 GDRAAQATVR------------------VAGRVTSVRDIG-KIIFVTIRSNGNELQVVGQ 142

Query: 141 VKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTP 200
           V      +++ +   SL    + D+IG   VP                      R  +  
Sbjct: 143 VGEHFTREDLKKLKVSLR---VGDIIGADGVP---------------------CRMQRGE 178

Query: 201 ITIEDASRSEAEIEKASKEGVQLPRV-------NQDTRLNNRVIDIRTLANQGIF---RI 250
           +++  ASR          + V  P +       + D +   R  D+ T  N  +    + 
Sbjct: 179 LSVA-ASRMLILSPYVCTDQVVCPNLRGFTVLQDNDVKYRYRFTDMMT--NPCVIETIKK 235

Query: 251 QSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQM 308
           +  +    R +    NFVE+ TP L  +A  +   S V   +       L  +P+LH + 
Sbjct: 236 RHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTHHNANAMDLFLRVAPELHLKQ 295

Query: 309 SICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH-YSEVMDIVDCLFVTIFD 367
            I G   R++E G VFR ED+    H  EFT    E     H Y ++M + + +F  +  
Sbjct: 296 CIVGGMERIYEIGKVFRNEDA-DRSHNPEFT--SCEFYAAYHTYEDLMPMTEDIFRQLAM 352

Query: 368 SLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNT 422
            +N     ++           +       R++  + +Q +  +GVE  P  +LNT
Sbjct: 353 RVNGTTVVQIYPENAHGNPVTVDLGKPFRRVSVYDEIQRM--SGVEFPPPNELNT 405

Length = 659

>gnl|CDD|177867 PLN02221, PLN02221, asparaginyl-tRNA synthetase

 Score = 53.8 bits (129), Expect = 9e-08
 Identities = 52/161 (32%), Positives = 85/161 (52%), Gaps = 20/161 (12%)

Query: 290 DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK 349
           D+ G+ A L  S QL  +   C     V+  GP FRAE+S+T RHL EF    VE EI  
Sbjct: 303 DFFGRQAFLTVSGQLQVETYACA-LSSVYTFGPTFRAENSHTSRHLAEF--WMVEPEIA- 358

Query: 350 HYSEVMDIVDC--LFVT-IFDSLNNVCKKELEAVAKQYP---FEPLKYKPKTL--RLTFE 401
            ++++ D ++C   +V  +   L + C  ++E +AK +     + L+    T   R+T+ 
Sbjct: 359 -FADLEDDMNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCIDRLRMVASTPFGRITYT 417

Query: 402 EGVQMLKDA---GVEID---PLG-DLNTESERKLGQLVLEK 435
           E +++L++A   G E D     G DL +E ER L +++ +K
Sbjct: 418 EAIELLEEAVAKGKEFDNNVEWGIDLASEHERYLTEVLFQK 458

Length = 572

>gnl|CDD|238391 cd00768, class_II_aaRS-like_core, Class II tRNA amino-acyl synthetase-like catalytic core domain

 Score = 50.2 bits (120), Expect = 4e-07
 Identities = 21/99 (21%), Positives = 34/99 (34%), Gaps = 11/99 (11%)

Query: 258 FRQFLLSENFVEIHTPKLIAGSSEGGSA------VFRLDYKGQSACLAQSPQLHKQMS-- 309
            R+F+    F E+ TP +        +       +       +   L  + +        
Sbjct: 9   LRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFV 68

Query: 310 --ICGDFGRVFETGPVFRAED-SYTHRHLCEFTGLDVEM 345
             I     R+ E GP FR E      R + EFT L+ E+
Sbjct: 69  SHIRKLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEV 107

Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ. Length = 211

>gnl|CDD|239811 cd04316, ND_PkAspRS_like_N, ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS)

 Score = 47.3 bits (113), Expect = 6e-07
 Identities = 26/65 (40%), Positives = 37/65 (56%), Gaps = 3/65 (4%)

Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164
           +EV + G VH  R +G  + FV++R+R   VQ   T     V KE+ + VR LS ES++ 
Sbjct: 13  EEVTVAGWVHEIRDLG-GIKFVILRDREGIVQ--VTAPKKKVDKELFKTVRKLSRESVIS 69

Query: 165 VIGVV 169
           V G V
Sbjct: 70  VTGTV 74

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes. Length = 108

>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase

 Score = 50.7 bits (121), Expect = 8e-07
 Identities = 85/388 (21%), Positives = 149/388 (38%), Gaps = 106/388 (27%)

Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRER--VSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
           + + + G V T R   + + F+ V +   +S +QC+ T  PD+   + V      +  S+
Sbjct: 108 KTLNVMGWVRTLR-AQSSVTFIEVNDGSCLSNMQCVMT--PDAEGYDQVESGLITTGASV 164

Query: 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGV 221
           + V G V    V  +G  Q+VE+++ K+  V ++  + PI  +  SR             
Sbjct: 165 L-VQGTV----VSSQGGKQKVELKVSKIVVVGKSDPSYPIQKKRVSR------------- 206

Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP-------- 273
           +  R     R        RT     + R+++ +     +F     FV + +P        
Sbjct: 207 EFLRTKAHLR-------PRTNTFGAVARVRNALAYATHKFFQENGFVWVSSPIITASDCE 259

Query: 274 ---------KLIAGSSE-GGSAVFRL------------DYKGQSACLAQSPQLHKQMSIC 311
                     LI  S+E GGS V  +            D+ G+ A L  S QL+ + +  
Sbjct: 260 GAGEQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWSQDFFGKPAFLTVSGQLNGE-TYA 318

Query: 312 GDFGRVFETGPVFRAEDSYTHRHLCEF---------TGLDVEMEIKKHY----------- 351
                V+  GP FRAE+S T RHL EF           L+ +M     Y           
Sbjct: 319 TALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFADLNDDMACATAYLQYVVKYILEN 378

Query: 352 -SEVMDIVDCLFVT-IFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKD 409
             E M+  +      I D L++V +K                    ++L++ + +++L  
Sbjct: 379 CKEDMEFFNTWIEKGIIDRLSDVVEKNF------------------VQLSYTDAIELLLK 420

Query: 410 AGVEID-PLG---DLNTESERKLGQLVL 433
           A  + + P+    DL +E ER + +   
Sbjct: 421 AKKKFEFPVKWGLDLQSEHERYITEEAF 448

Length = 565

>gnl|CDD|240414 PTZ00425, PTZ00425, asparagine-tRNA ligase; Provisional

 Score = 47.7 bits (113), Expect = 8e-06
 Identities = 38/133 (28%), Positives = 54/133 (40%), Gaps = 25/133 (18%)

Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
           +PRVN+  +   +  DI    N       S   N                    A SS  
Sbjct: 269 IPRVNKKNKKGEKREDILNTCNANNNNGNSSSSN--------------------AVSSPA 308

Query: 283 GSAVFRLDYK----GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEF 338
               + +DYK     + A L  S QL  + ++C   G V+  GP FRAE+S+T RHL EF
Sbjct: 309 YPDQYLIDYKKDFFSKQAFLTVSGQLSLE-NLCSSMGDVYTFGPTFRAENSHTSRHLAEF 367

Query: 339 TGLDVEMEIKKHY 351
             ++ E+     Y
Sbjct: 368 WMIEPEIAFADLY 380

Length = 586

>gnl|CDD|234778 PRK00484, lysS, lysyl-tRNA synthetase; Reviewed

 Score = 46.2 bits (111), Expect = 2e-05
 Identities = 44/141 (31%), Positives = 67/141 (47%), Gaps = 32/141 (22%)

Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFR--------LD---YKG 293
            FR +S++ +  R+FL +  F+E+ TP L  IAG   G +A  R        LD   Y  
Sbjct: 171 TFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAG---GAAA--RPFITHHNALDIDLY-- 223

Query: 294 QSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK---KH 350
               L  +P+L+ +  I G F RV+E G  FR E   T RH  EFT     +E       
Sbjct: 224 ----LRIAPELYLKRLIVGGFERVYEIGRNFRNEGIDT-RHNPEFT----MLEFYQAYAD 274

Query: 351 YSEVMDIVDCLFVTIFDSLNN 371
           Y+++MD+ + L   +  ++  
Sbjct: 275 YNDMMDLTEELIRHLAQAVLG 295

Length = 491

>gnl|CDD|216440 pfam01336, tRNA_anti, OB-fold nucleic acid binding domain

 Score = 41.5 bits (98), Expect = 4e-05
 Identities = 18/85 (21%), Positives = 38/85 (44%), Gaps = 12/85 (14%)

Query: 107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI 166
           V + GRV + R  G K+AF+ +R+   ++Q +         +E  +  + L    +V V 
Sbjct: 1   VTVAGRVTSVRRSGGKVAFLTLRDGTGSIQVVLF------KEEAEKLAKKLKEGDVVLVT 54

Query: 167 GVVSVPDVEIKGATQQVEVQIKKLY 191
           G V            ++E+ ++++ 
Sbjct: 55  GKVKKRP------GGELELVVEEIE 73

This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See pfam00152). Aminoacyl-tRNA synthetases catalyze the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family. This domain is also found at the C-terminus of bacterial DNA polymerase III alpha chain. Length = 75

>gnl|CDD|215291 PLN02532, PLN02532, asparagine-tRNA synthetase

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 34/106 (32%), Positives = 50/106 (47%), Gaps = 10/106 (9%)

Query: 274 KLIAGSSEGGSAV-FRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTH 332
           KL  G+S     + F  D+  +   L  S +LH +   C   G V+  GP FRA+   + 
Sbjct: 349 KLKTGTSVKADKLSFSKDFFSRPTYLTVSGRLHLESYACA-LGNVYTFGPRFRADRIDSA 407

Query: 333 RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELE 378
           RHL E   ++VEM     +SE+ D ++C      D    +CK  LE
Sbjct: 408 RHLAEMWMVEVEMA----FSELEDAMNC----AEDYFKFLCKWVLE 445

Length = 633

>gnl|CDD|236555 PRK09537, pylS, pyrolysyl-tRNA synthetase; Reviewed

 Score = 41.7 bits (98), Expect = 6e-04
 Identities = 55/242 (22%), Positives = 85/242 (35%), Gaps = 55/242 (22%)

Query: 130 ERVSTVQCLATVKPDSVSKEM----VRFVRSLSNES--IVDVIGVVSVPDVEIKGATQQV 183
           E  + V+      P    K M    VR  + L N      +  G   VP + +     + 
Sbjct: 88  EDKTQVKVKVVSAPTKKKKAMPKSVVRAPKPLENPVPAQAESSGSKPVPSIPVSTPEVKA 147

Query: 184 E------VQIKKL-YCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRV 236
                   Q  +L   +S   K  +  E     E E E  S+    L ++ ++ R     
Sbjct: 148 PAPALTPSQKDRLETLLSPKDKISLNSEKPKFKELESELVSRRKNDLKQMYEEDR----- 202

Query: 237 IDIRTLANQGIFRIQSQVGNIFR---QFLLSENFVEIHTPKLIAGSS----------EGG 283
                         +  +G + R   +F +   F+EI +P LI              E  
Sbjct: 203 --------------EDYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELS 248

Query: 284 SAVFRLDYKGQSACLAQ--SPQL----HKQMSICGDFGRVFETGPVFRAEDSYTHRHLCE 337
             +FR+D   ++ CL    +P L     K   I  D  ++FE GP +R E S    HL E
Sbjct: 249 KQIFRVD---KNFCLRPMLAPGLYNYLRKLDRILPDPIKIFEIGPCYRKE-SDGKEHLEE 304

Query: 338 FT 339
           FT
Sbjct: 305 FT 306

Length = 417

>gnl|CDD|173607 PTZ00417, PTZ00417, lysine-tRNA ligase; Provisional

 Score = 41.5 bits (97), Expect = 7e-04
 Identities = 70/320 (21%), Positives = 127/320 (39%), Gaps = 42/320 (13%)

Query: 27  KKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEA 86
           KK  + +A ++++KE EA         ++      N    +  Q+ + +N P   K+   
Sbjct: 61  KKVRSVQASKDKKKEEEA--------EVDPRLYYENRSKFIQEQKAKGIN-PYPHKFERT 111

Query: 87  VSGREWTEVGALNGS---LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKP 143
           ++  E+ E      S   L+D  + + GR+      G KL F  +    + +Q LA    
Sbjct: 112 ITVPEFVEKYQDLASGEHLEDTILNVTGRIMRVSASGQKLRFFDLVGDGAKIQVLANFAF 171

Query: 144 DSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PIT 202
              +K    F          D++G+V  P    KG   ++ +  K+   +S      P+ 
Sbjct: 172 HDHTKS--NFAECYDKIRRGDIVGIVGFPGKSKKG---ELSIFPKETIILSPCLHMLPM- 225

Query: 203 IEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLAN-QGIFRIQSQVGNIFRQF 261
                          K G++    + + R   R +D+    + +  F  ++++ N  R F
Sbjct: 226 ---------------KYGLK----DTEIRYRQRYLDLMINESTRSTFITRTKIINYLRNF 266

Query: 262 LLSENFVEIHTP--KLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFE 319
           L    F+E+ TP   L+AG +     +   +       L  + +L  +M I G   +V+E
Sbjct: 267 LNDRGFIEVETPTMNLVAGGANARPFITHHNDLDLDLYLRIATELPLKMLIVGGIDKVYE 326

Query: 320 TGPVFRAEDSYTHRHLCEFT 339
            G VFR E    + H  EFT
Sbjct: 327 IGKVFRNE-GIDNTHNPEFT 345

Length = 585

>gnl|CDD|235095 PRK02983, lysS, lysyl-tRNA synthetase; Provisional

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 58/252 (23%), Positives = 94/252 (37%), Gaps = 52/252 (20%)

Query: 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
            +EV + GRV   R  G  + F  +R+    +Q L           +  F  ++    +V
Sbjct: 651 GEEVSVSGRVLRIRDYG-GVLFADLRDWSGELQVLLD-ASRLEQGSLADFRAAVDLGDLV 708

Query: 164 DVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQL 223
           +V G +       +  T  + V                              A K    L
Sbjct: 709 EVTGTM----GTSRNGTLSLLVT-------------------------SWRLAGKCLRPL 739

Query: 224 PR-----VNQDTRLNNRVID--IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKL- 275
           P       + + R+  R +D  +   A   + R +S V    R+ L++  F+E+ TP L 
Sbjct: 740 PDKWKGLTDPEARVRQRYLDLAVNPEARD-LLRARSAVVRAVRETLVARGFLEVETPILQ 798

Query: 276 -IAGSSEGGSA---VFRLDYKGQSACLAQSPQLH-KQMSICGDFGRVFETGPVFRAED-S 329
            + G   G +A   V  ++       L  +P+L+ K++ + G   RVFE G  FR E   
Sbjct: 799 QVHG---GANARPFVTHINAYDMDLYLRIAPELYLKRLCV-GGVERVFELGRNFRNEGVD 854

Query: 330 YTHRHLCEFTGL 341
            TH    EFT L
Sbjct: 855 ATHNP--EFTLL 864

Length = 1094

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	435
KOG0556	533	consensus Aspartyl-tRNA synthetase [Translation, r	100.0
PLN02850	530	aspartate-tRNA ligase	100.0
PTZ00401	550	aspartyl-tRNA synthetase; Provisional	100.0
KOG1885	560	consensus Lysyl-tRNA synthetase (class II) [Transl	100.0
COG0017	435	AsnS Aspartyl/asparaginyl-tRNA synthetases [Transl	100.0
PLN02502	553	lysyl-tRNA synthetase	100.0
PRK05159	437	aspC aspartyl-tRNA synthetase; Provisional	100.0
TIGR00458	428	aspS_arch aspartyl-tRNA synthetase, archaeal type.	100.0
PLN02221	572	asparaginyl-tRNA synthetase	100.0
TIGR00499	496	lysS_bact lysyl-tRNA synthetase, eukaryotic and no	100.0
PRK03932	450	asnC asparaginyl-tRNA synthetase; Validated	100.0
PTZ00417	585	lysine-tRNA ligase; Provisional	100.0
TIGR00457	453	asnS asparaginyl-tRNA synthetase. In a multiple se	100.0
PRK12445	505	lysyl-tRNA synthetase; Reviewed	100.0
PRK00484	491	lysS lysyl-tRNA synthetase; Reviewed	100.0
PLN02603	565	asparaginyl-tRNA synthetase	100.0
PTZ00425	586	asparagine-tRNA ligase; Provisional	100.0
PLN02532	633	asparagine-tRNA synthetase	100.0
PTZ00385	659	lysyl-tRNA synthetase; Provisional	100.0
PRK02983	1094	lysS lysyl-tRNA synthetase; Provisional	100.0
PLN02903	652	aminoacyl-tRNA ligase	100.0
TIGR00459	583	aspS_bact aspartyl-tRNA synthetase, bacterial type	100.0
COG1190	502	LysU Lysyl-tRNA synthetase (class II) [Translation	100.0
PRK12820	706	bifunctional aspartyl-tRNA synthetase/aspartyl/glu	100.0
PRK00476	588	aspS aspartyl-tRNA synthetase; Validated	100.0
COG0173	585	AspS Aspartyl-tRNA synthetase [Translation, riboso	100.0
KOG0555	545	consensus Asparaginyl-tRNA synthetase [Translation	100.0
KOG0554	446	consensus Asparaginyl-tRNA synthetase (mitochondri	100.0
cd00776	322	AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class	100.0
KOG2411	628	consensus Aspartyl-tRNA synthetase, mitochondrial	100.0
PRK06462	335	asparagine synthetase A; Reviewed	100.0
PF00152	335	tRNA-synt_2: tRNA synthetases class II (D, K and N	100.0
TIGR00462	304	genX lysyl-tRNA synthetase-like protein GenX. Many	100.0
cd00775	329	LysRS_core Lys_tRNA synthetase (LysRS) class II co	100.0
cd00669	269	Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase cl	100.0
cd00777	280	AspRS_core Asp tRNA synthetase (aspRS) class II co	100.0
PRK09350	306	poxB regulator PoxA; Provisional	100.0
COG2269	322	Truncated, possibly inactive, lysyl-tRNA synthetas	99.95
cd04317	135	EcAspRS_like_N EcAspRS_like_N: N-terminal, anticod	99.91
cd04322	108	LysRS_N LysRS_N: N-terminal, anticodon recognition	99.88
cd04320	102	AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon r	99.84
cd04316	108	ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, a	99.81
cd04319	103	PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticod	99.81
cd04100	85	Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, ant	99.69
cd04323	84	AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, a	99.64
cd04321	86	ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, a	99.58
cd04318	82	EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticod	99.57
PRK09537	417	pylS pyrolysyl-tRNA synthetase; Reviewed	99.41
cd00768	211	class_II_aaRS-like_core Class II tRNA amino-acyl s	99.16
PF01336	75	tRNA_anti-codon: OB-fold nucleic acid binding doma	98.99
TIGR02367	453	PylS pyrrolysyl-tRNA synthetase. PylS is the archa	98.89
cd00496	218	PheRS_alpha_core Phenylalanyl-tRNA synthetase (Phe	98.53
PF01409	247	tRNA-synt_2d: tRNA synthetases class II core domai	98.45
cd00773	261	HisRS-like_core Class II Histidinyl-tRNA synthetas	98.37
PF00587	173	tRNA-synt_2b: tRNA synthetase class II core domain	98.35
PRK00488	339	pheS phenylalanyl-tRNA synthetase subunit alpha; V	98.26
TIGR00468	294	pheS phenylalanyl-tRNA synthetase, alpha subunit.	98.2
cd00670	235	Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_t	98.17
PRK00037	412	hisS histidyl-tRNA synthetase; Reviewed	98.14
TIGR00442	397	hisS histidyl-tRNA synthetase. This model finds a	98.07
PRK04172	489	pheS phenylalanyl-tRNA synthetase subunit alpha; P	97.98
cd00778	261	ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS)	97.96
cd00772	264	ProRS_core Prolyl-tRNA synthetase (ProRS) class II	97.96
PTZ00326	494	phenylalanyl-tRNA synthetase alpha chain; Provisio	97.94
PLN02853	492	Probable phenylalanyl-tRNA synthetase alpha chain	97.9
cd00771	298	ThrRS_core Threonyl-tRNA synthetase (ThrRS) class	97.87
cd00779	255	ProRS_core_prok Prolyl-tRNA synthetase (ProRS) cla	97.86
TIGR00409	568	proS_fam_II prolyl-tRNA synthetase, family II. Pro	97.86
COG0016	335	PheS Phenylalanyl-tRNA synthetase alpha subunit [T	97.84
cd00774	254	GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-lik	97.83
PRK09194	565	prolyl-tRNA synthetase; Provisional	97.81
cd00770	297	SerRS_core Seryl-tRNA synthetase (SerRS) class II	97.81
TIGR00443	314	hisZ_biosyn_reg ATP phosphoribosyltransferase, reg	97.8
PF13393	311	tRNA-synt_His: Histidyl-tRNA synthetase; PDB: 3HRI	97.75
PLN02788	402	phenylalanine-tRNA synthetase	97.72
PRK12305	575	thrS threonyl-tRNA synthetase; Reviewed	97.7
PLN02908	686	threonyl-tRNA synthetase	97.69
TIGR00414	418	serS seryl-tRNA synthetase. This model represents	97.68
PRK12293	281	hisZ ATP phosphoribosyltransferase regulatory subu	97.66
PRK12292	391	hisZ ATP phosphoribosyltransferase regulatory subu	97.64
PRK05431	425	seryl-tRNA synthetase; Provisional	97.64
TIGR00418	563	thrS threonyl-tRNA synthetase. This model represen	97.6
PLN02972	763	Histidyl-tRNA synthetase	97.55
PRK12444	639	threonyl-tRNA synthetase; Reviewed	97.55
PRK14799	545	thrS threonyl-tRNA synthetase; Provisional	97.53
PRK00413	638	thrS threonyl-tRNA synthetase; Reviewed	97.52
PRK08661	477	prolyl-tRNA synthetase; Provisional	97.52
PRK12420	423	histidyl-tRNA synthetase; Provisional	97.51
CHL00201	430	syh histidine-tRNA synthetase; Provisional	97.51
PRK03991	613	threonyl-tRNA synthetase; Validated	97.46
PRK12325	439	prolyl-tRNA synthetase; Provisional	97.45
TIGR00408	472	proS_fam_I prolyl-tRNA synthetase, family I. Proly	97.45
PRK12421	392	ATP phosphoribosyltransferase regulatory subunit;	97.36
PLN02530	487	histidine-tRNA ligase	97.36
PRK12295	373	hisZ ATP phosphoribosyltransferase regulatory subu	97.19
PLN02678	448	seryl-tRNA synthetase	97.06
PLN02837	614	threonine-tRNA ligase	97.04
cd04489	78	ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB fol	96.95
COG0124	429	HisS Histidyl-tRNA synthetase [Translation, riboso	96.89
PRK04173	456	glycyl-tRNA synthetase; Provisional	96.72
KOG2784	483	consensus Phenylalanyl-tRNA synthetase, beta subun	96.7
PF13742	99	tRNA_anti_2: OB-fold nucleic acid binding domain	96.65
cd04487	73	RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB f	96.6
PLN02320	502	seryl-tRNA synthetase	96.52
COG1107	715	Archaea-specific RecJ-like exonuclease, contains D	96.34
COG0442	500	ProS Prolyl-tRNA synthetase [Translation, ribosoma	96.24
PRK12294	272	hisZ ATP phosphoribosyltransferase regulatory subu	96.21
TIGR00470	533	sepS O-phosphoseryl-tRNA(Cys) synthetase. This fam	96.17
cd04485	84	DnaE_OBF DnaE_OBF: A subfamily of OB folds corresp	96.15
PRK07373	449	DNA polymerase III subunit alpha; Reviewed	96.07
cd03524	75	RPA2_OBF_family RPA2_OBF_family: A family of oligo	95.88
cd04478	95	RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds cor	95.87
TIGR00415	520	serS_MJ seryl-tRNA synthetase, Methanococcus janna	95.82
PRK00960	517	seryl-tRNA synthetase; Provisional	95.77
cd04482	91	RPA2_OBF_like RPA2_OBF_like: A subgroup of unchara	95.62
cd04492	83	YhaM_OBF_like YhaM_OBF_like: A subfamily of OB fol	95.24
cd04474	104	RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds cor	94.98
KOG2324	457	consensus Prolyl-tRNA synthetase [Translation, rib	94.96
cd04483	92	hOBFC1_like hOBFC1_like: A subfamily of OB folds s	94.77
KOG1936	518	consensus Histidyl-tRNA synthetase [Translation, r	94.76
COG0172	429	SerS Seryl-tRNA synthetase [Translation, ribosomal	94.7
PRK07374	1170	dnaE DNA polymerase III subunit alpha; Validated	94.6
PF04076	103	BOF: Bacterial OB fold (BOF) protein; InterPro: IP	94.58
PRK05673	1135	dnaE DNA polymerase III subunit alpha; Validated	94.25
COG0423	558	GRS1 Glycyl-tRNA synthetase (class II) [Translatio	94.0
PRK05672	1046	dnaE2 error-prone DNA polymerase; Validated	93.69
PRK06920	1107	dnaE DNA polymerase III DnaE; Reviewed	93.66
TIGR00156	126	conserved hypothetical protein TIGR00156. As of th	93.53
cd04490	79	PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds	93.48
PF10451	256	Stn1: Telomere regulation protein Stn1; InterPro:	93.38
PRK09616	552	pheT phenylalanyl-tRNA synthetase subunit beta; Re	93.33
PRK06826	1151	dnaE DNA polymerase III DnaE; Reviewed	93.22
COG0441	589	ThrS Threonyl-tRNA synthetase [Translation, riboso	92.97
COG3111	128	Periplasmic protein with OB-fold [Function unknown	92.91
PRK10053	130	hypothetical protein; Provisional	92.79
PRK07279	1034	dnaE DNA polymerase III DnaE; Reviewed	92.57
TIGR00389	551	glyS_dimeric glycyl-tRNA synthetase, dimeric type.	92.35
TIGR00469	460	pheS_mito phenylalanyl-tRNA synthetase, mitochondr	91.87
COG1570	440	XseA Exonuclease VII, large subunit [DNA replicati	91.71
cd04479	101	RPA3 RPA3: A subfamily of OB folds similar to huma	91.66
TIGR00617	608	rpa1 replication factor-a protein 1 (rpa1). This f	91.15
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	90.5
PF08661	109	Rep_fac-A_3: Replication factor A protein 3; Inter	90.12
cd04488	75	RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB f	89.66
cd00769	198	PheRS_beta_core Phenylalanyl-tRNA synthetase (PheR	89.55
COG3705	390	HisZ ATP phosphoribosyltransferase involved in his	89.51
COG4085	204	Predicted RNA-binding protein, contains TRAM domai	89.1
PRK07459	121	single-stranded DNA-binding protein; Provisional	88.12
PF12869	144	tRNA_anti-like: tRNA_anti-like; InterPro: IPR02442	87.79
PRK15491	374	replication factor A; Provisional	87.75
PRK00286	438	xseA exodeoxyribonuclease VII large subunit; Revie	87.74
TIGR00237	432	xseA exodeoxyribonuclease VII, large subunit. This	87.43
cd04484	82	polC_OBF polC_OBF: A subfamily of OB folds corresp	86.64
KOG2509	455	consensus Seryl-tRNA synthetase [Translation, ribo	86.39
PRK06461	129	single-stranded DNA-binding protein; Reviewed	85.57
PRK06863	168	single-stranded DNA-binding protein; Provisional	85.46
PF00436	104	SSB: Single-strand binding protein family; InterPr	84.93
PRK08486	182	single-stranded DNA-binding protein; Provisional	84.83
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	84.28
PRK07275	162	single-stranded DNA-binding protein; Provisional	83.87
KOG1035	1351	consensus eIF-2alpha kinase GCN2 [Translation, rib	83.53
PRK14699	484	replication factor A; Provisional	83.15
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	82.77
KOG3108	265	consensus Single-stranded DNA-binding replication	82.74
PRK06751	173	single-stranded DNA-binding protein; Provisional	82.52
PRK02801	101	primosomal replication protein N; Provisional	82.41
COG5235	258	RFA2 Single-stranded DNA-binding replication prote	82.34
PRK13480	314	3'-5' exoribonuclease YhaM; Provisional	82.15
PRK12366	637	replication factor A; Reviewed	82.03
PRK06293	161	single-stranded DNA-binding protein; Provisional	81.42
PF03590	244	AsnA: Aspartate-ammonia ligase; InterPro: IPR00461	81.18
PRK07135	973	dnaE DNA polymerase III DnaE; Validated	80.87

>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.9e-109  Score=815.60  Aligned_cols=407  Identities=56%  Similarity=0.819  Sum_probs=382.9

Q ss_pred             cccCCccccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCccCCChhhhhccCCCCCCCccccccCcce
Q 013856           13 EVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREW   92 (435)
Q Consensus        13 ~~~~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~~~~~~~~~~d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~   92 (435)
                      ..+++|+ +|||++||.+|+++|..+|+|++..+.  ++..++++|.++++||++++.++|+.            +++.|
T Consensus         6 ~~gE~gk-~SKK~~kk~a~~~eK~~~k~e~~~~~~--~a~~~~~ed~~~~~yg~~~l~~s~~~------------~~~~~   70 (533)
T KOG0556|consen    6 ALGEDGK-LSKKALKKLAKKLEKLRKKQEREETAA--KAREAEAEDYAKERYGDLSLIQSQSK------------EGREL   70 (533)
T ss_pred             hcccccc-ccHHHHHHHHHHHHHHHhhhhhhhhhh--hhhhhhhhhHHhhhcCcccccccccc------------cccce
Confidence            3455676 999999999999999999988654222  22335677889999999999988873            78899


Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCC-CCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPD-SVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~-~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      +.+.+|+.+..|+.||||||||+.|.+| |+||++|||++.+|||++..+.+ .++++|++|+++|+.||||+|.|+|++
T Consensus        71 ~~v~dl~~~~~~~~V~vRgrVhtsr~~G-K~~FlvLRq~~~tVQ~~~~~~~~~~isk~Mvkf~~~is~ESiV~v~g~v~k  149 (533)
T KOG0556|consen   71 TDVSDLDESNDGSEVLVRGRVHTSRLKG-KLCFLVLRQQGSTVQCLVAVNEDGTISKQMVKFAGSISKESIVDVRGVVVK  149 (533)
T ss_pred             eehhhhhhhcCCceEEEEEEEeeccccc-eEEEEEEeccCceEEEEEEcCCCchHHHHHHHHHhhcCcceEEEEEEEEec
Confidence            9999999999999999999999999999 99999999999999999988765 389999999999999999999999999


Q ss_pred             CCccCCCCc-eeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          172 PDVEIKGAT-QQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       172 ~~~~~~~~t-~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      ++.|++||| +++||+|.+|+|||.+ +.||++++|++|++.+.+++.+.+..+.++++|||||||+||||||++|+|||
T Consensus       150 ~~~~i~scT~qdvEi~v~~iyviS~a~~~LPl~veDasrse~~eE~a~~~~~~~~~Vn~dtRLdnRvlDLRtptnqAiFr  229 (533)
T KOG0556|consen  150 VKEPIKSCTVQDVEIHVRKIYVISIALPNLPLQVEDASRSEPDEEKAAEPESTLARVNLDTRLDNRVLDLRTPTNQAIFR  229 (533)
T ss_pred             CCCcccccccceeEEEEEEEEEEecccccCCeeehhhcccccchhhhcCCccccceecccccccceeeecccccchheee
Confidence            999999999 6699999999999999 99999999999988766666666667889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcC
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS  329 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s  329 (435)
                      +++.||.+||+||..+||+|||||+|+++++|||+++|.|+||+.++||+|||||||||+|||||+|||+||||||||+|
T Consensus       230 iq~gvc~~FRe~L~~kgF~EIhTpKli~asSEGGanvF~v~Yfk~~A~LAQSPQLyKQMaI~gdf~rVyeIGpVfRAEdS  309 (533)
T KOG0556|consen  230 IQAGVCFAFREYLRSKGFVEIHTPKLIGASSEGGANVFRVSYFKQKAYLAQSPQLYKQMAICGDFERVYEIGPVFRAEDS  309 (533)
T ss_pred             hHHHHHHHHHHHHHhcCcceecccccccccCCCCceeEEEEeccCcchhhcChHHHHHHHHhcchhheeeecceeecccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHH
Q 013856          330 YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKD  409 (435)
Q Consensus       330 ~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~  409 (435)
                      ||||||+||++||+||+|..||+|+|+++.+||.+||+.|.++|+++|+.++.+||+++++|..|..|++|.||++||++
T Consensus       310 nthRhltEFvGLD~EMaf~~hYhEVm~~i~~lfv~IF~~l~ery~~Eie~Vr~qyp~e~fkf~~~~lrl~~~e~v~mLre  389 (533)
T KOG0556|consen  310 NTHRHLTEFVGLDLEMAFNEHYHEVMDTIGELFVFIFKGLRERYAKEIETVRKQYPFEPFKFLEPPLRLTFKEGVAMLRE  389 (533)
T ss_pred             chhhhhHHhhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccCCCceEeehHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCcHHHHHHHHHHhcC
Q 013856          410 AGVEIDPLGDLNTESERKLGQLVLEK  435 (435)
Q Consensus       410 ~g~~~~~~~dl~te~E~~L~~~vkek  435 (435)
                      +|+++++.+||+||.||+||++|+||
T Consensus       390 aGvE~g~~dDlsTe~Ek~LG~lV~ek  415 (533)
T KOG0556|consen  390 AGVEMGDEDDLSTESEKKLGQLVREK  415 (533)
T ss_pred             cCcccCCccccCChhHHHHHHHHHHH
Confidence            99999999999999999999999987

>PLN02850 aspartate-tRNA ligase

Probab=100.00  E-value=1.1e-93  Score=756.89  Aligned_cols=407  Identities=71%  Similarity=1.072  Sum_probs=366.2

Q ss_pred             cccCCccccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCccCCChhhhhccCCCCCCCccccccCcce
Q 013856           13 EVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREW   92 (435)
Q Consensus        13 ~~~~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~~~~~~~~~~d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~   92 (435)
                      .++..+..+|||++||++|+++|++++++++++. ++   ...++|..+++||++|+.++++.           .+.++|
T Consensus         5 ~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~-~~---~~~~~~~~~~~yg~~~~~~~~~~-----------~~~~~~   69 (530)
T PLN02850          5 AVEESGEKISKKAAKKAAAKAEKLRREATAKAAA-AS---LEDEDDPLASNYGDVPLEELQSK-----------VTGREW   69 (530)
T ss_pred             cccccCCCcCHHHHHHHHHHHHHHHHHHHHHHHH-hh---hccccchhhccCCcccccccccc-----------cCCceE
Confidence            3455677799999999999999998876633221 11   12256888999999999876641           256789


Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|++.+.|++|+|+||||++|.+| +++|++|||++++||||+..+...++++|++|+..|+.||+|.|+|+|+.|
T Consensus        70 ~~i~~l~~~~~g~~V~v~Grv~~~R~~g-k~~Fl~Lrd~~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~  148 (530)
T PLN02850         70 TDVSDLGEELAGSEVLIRGRVHTIRGKG-KSAFLVLRQSGFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVP  148 (530)
T ss_pred             eEhhhcchhhCCCEEEEEEEEEEEccCC-CeEEEEEEeCCcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEcc
Confidence            9999999999999999999999999999 699999999999999999876544789999999999999999999999998


Q ss_pred             CccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHH
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ  251 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~r  251 (435)
                      ..|++++++++||++++|+|||+| ++||++++|+++++.+.+.....+..++++++++||+|||||||++.+++||++|
T Consensus       149 ~~~~~~~t~~~El~~~~i~vls~a~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~rl~~R~LdlR~~~~qaifrir  228 (530)
T PLN02850        149 KKPVKGTTQQVEIQVRKIYCVSKALATLPFNVEDAARSESEIEKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAIFRIQ  228 (530)
T ss_pred             CcCCCCCCccEEEEEeEEEEEeCCCCCCCCChhhcccccccccccccccccccccChhhhhcchhhhhcCHHHHHHHHHH
Confidence            888899999999999999999999 9999999998876543322111233467889999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCC
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT  331 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t  331 (435)
                      |.|+++||+||.++||+||+||+|+++++|||+++|.|+|||+++||+|||||||||++++|++||||||||||||+|+|
T Consensus       229 s~i~~~~R~fl~~~gF~EV~TP~L~~~~~egga~~F~v~yf~~~~~L~qSpql~kq~li~~g~~rVfeIgp~FRaE~s~t  308 (530)
T PLN02850        229 SQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRLDYKGQPACLAQSPQLHKQMAICGDFRRVFEIGPVFRAEDSFT  308 (530)
T ss_pred             HHHHHHHHHHHHHCCcEEEeCCccccCCCccccceeeeccCCcceecCCCHHHHHHHHHHhcCCceEEEecccccCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHcC
Q 013856          332 HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAG  411 (435)
Q Consensus       332 ~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g  411 (435)
                      +|||||||||||||+|.++|+|+|+++|+||++|+..+.++|..+|+.++.++|++++.+..+++|+||.||++||++.|
T Consensus       309 ~RHl~EFt~Le~Em~~~~~y~evm~~~E~ll~~i~~~l~~~~~~el~~i~~~~~~~~~~~~~~~~rit~~ea~~~L~~~g  388 (530)
T PLN02850        309 HRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFDGLNERCKKELEAIREQYPFEPLKYLPKTLRLTFAEGIQMLKEAG  388 (530)
T ss_pred             CccchhhccchhhhhhhcCHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhcccCCcchhhhcCCcccCCHHHHHHHHHHcC
Confidence            99999999999999999889999999999999999999999999999999888988888888999999999999999999


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHhcC
Q 013856          412 VEIDPLGDLNTESERKLGQLVLEK  435 (435)
Q Consensus       412 ~~~~~~~dl~te~E~~L~~~vkek  435 (435)
                      +++++++||++++|+.||++|+++
T Consensus       389 ~~~~~~~dl~~~~E~~Lg~~v~~~  412 (530)
T PLN02850        389 VEVDPLGDLNTESERKLGQLVKEK  412 (530)
T ss_pred             CCCCCCCCcchHHHHHHHHHHHHh
Confidence            998889999999999999999874

>PTZ00401 aspartyl-tRNA synthetase; Provisional

Probab=100.00  E-value=2.6e-88  Score=716.58  Aligned_cols=390  Identities=43%  Similarity=0.682  Sum_probs=344.1

Q ss_pred             ccccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCccCCChhhhhccCCCCCCCccccccCcceeEecc
Q 013856           18 SQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGA   97 (435)
Q Consensus        18 ~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~~~~~~~~~~d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~~~i~~   97 (435)
                      ....+|+++||++|+++|+++++++++....++    .++|..+++||.+|+.|++.            .+.++|++|++
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~g~~~~~~~~~------------~~~~~~~~i~~   70 (550)
T PTZ00401          7 DAGAPAVEKKQSDKEARKAARLAEEKARAAEKA----ALVEKYKDVFGAAPMVQSTT------------YKSRTFIPVAV   70 (550)
T ss_pred             ccCcchhhHHHHHHHHHhHHHHHHHHHHHHhhh----hccchhhccCCccccccccc------------cCCCceEEHHH
Confidence            456789999999999999998887543222211    15688899999999986654            35678999999


Q ss_pred             ccCCC-CCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC
Q 013856           98 LNGSL-KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI  176 (435)
Q Consensus        98 l~~~~-~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~  176 (435)
                      |+..+ .|++|+|+|||+++|.+| +++|++|||++++||||+..+. .++++|++|+..|+.||+|+|+|+|+.+..++
T Consensus        71 l~~~~~~g~~V~v~Grv~~~R~~G-k~~Fl~LRd~~~~iQ~v~~~~~-~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~  148 (550)
T PTZ00401         71 LSKPELVDKTVLIRARVSTTRKKG-KMAFMVLRDGSDSVQAMAAVEG-DVPKEMIDFIGQIPTESIVDVEATVCKVEQPI  148 (550)
T ss_pred             CCccccCCCEEEEEEEEEEEecCC-CeEEEEEEeCCcCEEEEEECCC-ccCHHHHHHHhcCCCCCEEEEEEEEEecCccC
Confidence            98777 899999999999999999 8899999999999999997653 36889999999999999999999999887777


Q ss_pred             CCCc-eeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHH
Q 013856          177 KGAT-QQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQV  254 (435)
Q Consensus       177 ~~~t-~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i  254 (435)
                      ++++ +++||++++|+|||+| ++||++++|+++++.         .....++++|||+|||||||++.++++|++||.|
T Consensus       149 ~~~~~~~~El~v~~i~vls~a~~~lP~~~~d~~~~~~---------~~~~~~~~dtrl~~R~LdlR~~~~~~i~r~rs~i  219 (550)
T PTZ00401        149 TSTSHSDIELKVKKIHTVTESLRTLPFTLEDASRKES---------DEGAKVNFDTRLNSRWMDLRTPASGAIFRLQSRV  219 (550)
T ss_pred             CCCCCccEEEEeeEEEEEeCCCCCCCCCccccccccc---------ccccccChhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence            6666 6799999999999999 899999999876432         1234578999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCcc
Q 013856          255 GNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRH  334 (435)
Q Consensus       255 ~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rH  334 (435)
                      +++||+||.++||+|||||+|+++++|||+++|.++|||.++||+|||||||||+++||++|||+||||||||+++|+||
T Consensus       220 ~~~~R~fl~~~gFiEV~TP~L~~~~~egga~~F~v~yf~~~~~L~qSpql~kq~li~~g~~rVfeI~p~FRaE~s~T~RH  299 (550)
T PTZ00401        220 CQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKLEYFNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFRSENSNTHRH  299 (550)
T ss_pred             HHHHHHHHHHCCCEEEeCCccccCCCCccccccccccCCCCeecCCCHHHHHHHHHhcCCCCEEEEeCeEeCCCCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCC----------------------
Q 013856          335 LCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYK----------------------  392 (435)
Q Consensus       335 l~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~----------------------  392 (435)
                      |||||||||||+|.++|+|+|+++|+||.+++..+.++ ..+|+.++.++|++++.|.                      
T Consensus       300 l~EFt~Le~E~~~~~~y~evm~~~e~l~~~i~~~l~~~-~~ei~~~~~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~~  378 (550)
T PTZ00401        300 LTEFVGLDVEMRINEHYYEVLDLAESLFNYIFERLATH-TKELKAVCQQYPFEPLVWKLTPERMKELGVGVISEGVEPTD  378 (550)
T ss_pred             ccchhhhhhhhHhcCCHHHHHHHHHHHHHHHHHHHHcc-chhhhhhccccccccccccccHHHHHhcCCCcccccccchH
Confidence            99999999999998789999999999999999999876 4567777766776554221                      


Q ss_pred             ----------CCCccccHHHHHHHHHHcC-CCCCCCCCCCcHHHHHHHHHHhcC
Q 013856          393 ----------PKTLRLTFEEGVQMLKDAG-VEIDPLGDLNTESERKLGQLVLEK  435 (435)
Q Consensus       393 ----------~p~~rit~~eai~ll~~~g-~~~~~~~dl~te~E~~L~~~vkek  435 (435)
                                .||+||+|.||++||++.| .+++|++||++++|+.||++|+++
T Consensus       379 ~l~~~~~~~~~~~~rl~y~eai~lL~~~~~~~~~~~~dl~~~~E~~L~~~v~~~  432 (550)
T PTZ00401        379 KYQARVHNMDSRMLRINYMHCIELLNTVLEEKMAPTDDINTTNEKLLGKLVKER  432 (550)
T ss_pred             HHHHHHHhcCCCcccccHHHHHHHHHHhcccCCCcccccCchHHHHHHHHHHHh
Confidence                      2489999999999999986 567888999999999999999864

>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=6.2e-81  Score=625.55  Aligned_cols=380  Identities=23%  Similarity=0.355  Sum_probs=323.9

Q ss_pred             ccccChhHHHHHHHHHHHHHHHHHHHHHHH------HHhhhcccccCCCCCCccCCChhhhhcc----CCCCCCCccccc
Q 013856           18 SQSISKKAAKKEAAKKAKEERRKEAEAAAS------AASALSIEEEGPLANNYGDVPLQELQSV----NDPQTGKWSEAV   87 (435)
Q Consensus        18 ~~~~sk~~lkk~~k~~~k~~kka~~~~~~~------~~~~~~~~~~d~~~~~Yg~~~~~~~~~~----~~pyp~~~~~~~   87 (435)
                      .+++||++|||+.+..+|+..++.+++...      .+......+++.++.+|.++|...++++    .|||||||++++
T Consensus         5 s~~~sk~~lkrr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~d~~qy~~~R~r~i~~l~~s~~~Pyphkf~vs~   84 (560)
T KOG1885|consen    5 SEMLSKNELKRRSLAKQKALEKAKKASSKAAAPSVAAAKSVSKSEETSDPEQYFKIRSRAIEELRASGLNPYPHKFHVSI   84 (560)
T ss_pred             hhhhhHHHHHHhHHHhhHHHHHHHhhhhccCCCccccccccccccccCCHHHHHHHHHHHHHHHhhcCCCCCcchhhccc
Confidence            478999999999999888776665432111      1111335677889999999999988774    599999999999


Q ss_pred             cCccee-Eeccc--cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856           88 SGREWT-EVGAL--NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD  164 (435)
Q Consensus        88 ~~~~~~-~i~~l--~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~  164 (435)
                      +..+|. ++..+  +++..+..|+|+||||++|.+|+||+|++|++++.+||+|++.+....+.++....+.|++||||+
T Consensus        85 si~~fieky~~l~~ge~~~n~~~svaGRI~s~R~sGsKL~Fydl~~~g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig  164 (560)
T KOG1885|consen   85 SIPDFIEKYLHLATGEHLDNEIVSVAGRIHSKRESGSKLVFYDLHGDGVKLQVMANAKKITSEEDFEQLHKFLKRGDIIG  164 (560)
T ss_pred             cHHHHHHHhcCcccccccccceeeeeeeEeeeeccCCceEEEEEecCCeEEEEEEehhhcCCHHHHHHHHhhhhccCEEe
Confidence            986653 22322  455667789999999999999999999999999999999999876534455666778899999999


Q ss_pred             EEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeec-h
Q 013856          165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRT-L  242 (435)
Q Consensus       165 V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~-~  242 (435)
                      |.|.+++      +.+++++|.+.+|.+|||| ++||..                   ++++.|+|+|+++|||||+. +
T Consensus       165 ~~G~pgr------t~~gELSi~~~~~~lLspcLh~lP~~-------------------~~gLkD~EtRyrqRylDlilN~  219 (560)
T KOG1885|consen  165 VSGYPGR------TKSGELSIIPNEIILLSPCLHMLPHE-------------------HFGLKDKETRYRKRYLDLILNP  219 (560)
T ss_pred             eecCCCc------CCCceEEEeecchheecchhccCChh-------------------hcCCCcHHHHHHHHHHHHHcCH
Confidence            9996654      3457999999999999999 999942                   67889999999999999987 7


Q ss_pred             hhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--eeee--ccCCCceeeccChHHHHhhhccCCCceeE
Q 013856          243 ANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--VFRL--DYKGQSACLAQSPQLHKQMSICGDFGRVF  318 (435)
Q Consensus       243 ~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--~F~~--~~~~~~~~L~~Spql~lq~li~~g~~rVf  318 (435)
                      .++..|++|++|+.+||.||+++||+||+||||+.  ..|||.  ||.+  +.++.++|||+|||||+|||++||++|||
T Consensus       220 ~~r~~f~~RakII~~iRkfld~rgFlEVETPmmn~--iaGGA~AkPFIT~hndldm~LylRiAPEL~lK~LvVGGldrVY  297 (560)
T KOG1885|consen  220 EVRDRFRIRAKIISYIRKFLDSRGFLEVETPMMNM--IAGGATAKPFITHHNDLDMDLYLRIAPELYLKMLVVGGLDRVY  297 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcCceEecchhhcc--ccCccccCceeecccccCcceeeeechHHHHHHHHhccHHHHH
Confidence            89999999999999999999999999999999975  456655  9998  45899999999999999999999999999


Q ss_pred             EEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccc
Q 013856          319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRL  398 (435)
Q Consensus       319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~ri  398 (435)
                      |||++||||+. +.+||||||.|||||||+| |+|+|+++|+||+.+++.+.+.|.......+...+.-.++|.+||+||
T Consensus       298 EIGr~FRNEGI-DlTHNPEFTTcEfY~AYad-y~dlm~~TE~l~s~mv~~i~G~~~i~y~p~~~~~~~~eldf~~pfrri  375 (560)
T KOG1885|consen  298 EIGRQFRNEGI-DLTHNPEFTTCEFYMAYAD-YEDLMDMTEELLSGMVKNITGSYKITYHPNGPEEPELELDFTRPFRRI  375 (560)
T ss_pred             HHHHHhhhcCc-ccccCCCcchHHHHHHHhh-HHHHHHHHHHHHHHHHHhhcCceeEeecCCCCCCCceeeeccCCeeee
Confidence            99999999995 9999999999999999997 999999999999999999998886554444443444458999999999


Q ss_pred             cHHHHHHHHHHcCCCCCCCCCCCcHHHHHH
Q 013856          399 TFEEGVQMLKDAGVEIDPLGDLNTESERKL  428 (435)
Q Consensus       399 t~~eai~ll~~~g~~~~~~~dl~te~E~~L  428 (435)
                      +|-+.++  ++.|++++++++|++++-+.+
T Consensus       376 ~mi~~L~--k~lgi~l~~~~~l~~~e~~~~  403 (560)
T KOG1885|consen  376 EMIEELE--KELGIKLPPGSTLHTEETREL  403 (560)
T ss_pred             eHHHHHH--HHhCCCCCCccccCchhhHHH
Confidence            9999998  899999999999999877554

>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.1e-75  Score=596.54  Aligned_cols=310  Identities=35%  Similarity=0.564  Sum_probs=282.2

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      .+.+.++.+...|+.|+|+|||+++|.+| +++|+.|||+++.||||+.+++  +.+++++ ++.|+.||+|.|+|+|+.
T Consensus         4 ~~~i~di~~~~~~~~V~v~GWV~~~R~~g-~i~Fi~lrDgsg~iQ~v~~~~~--~~~~~~~-~~~L~~es~v~V~G~v~~   79 (435)
T COG0017           4 RTYIKDIKPHVGGQEVTVRGWVHNKRDLG-KIIFLVLRDGSGFIQAVVPKNK--VYEELFK-AKKLTLESSVVVTGIVKA   79 (435)
T ss_pred             eeeHHhhhccCCCcEEEEEEEeeeecccC-CeEEEEEEcCCcEEEEEEECCC--CcHHHhh-hhcCCCccEEEEEEEEEc
Confidence            35566776666669999999999999999 7999999999999999998652  3677888 899999999999999987


Q ss_pred             CCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHH
Q 013856          172 PDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI  250 (435)
Q Consensus       172 ~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~  250 (435)
                      .++    +.|++||++++|.|++.+ .++|++.+..                   +++++|++|||||||++..++||++
T Consensus        80 ~~~----a~~g~El~v~~i~Vl~~a~~~~Pi~~~~~-------------------~~~e~lld~rhL~lR~~~~~Av~ki  136 (435)
T COG0017          80 SPK----APQGFELQVEKIEVLGEADPPYPIDKKEH-------------------SELETLLDNRHLDLRTPKIQAVFKI  136 (435)
T ss_pred             CCC----CCCCEEEEEEEEEEeeccCCCCCcCcccc-------------------cCHHHHHhchheeccccchHHHHhH
Confidence            653    347899999999999999 7899986542                   2689999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCC
Q 013856          251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY  330 (435)
Q Consensus       251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~  330 (435)
                      ||.|++++|+||.++||+||+||+|+++++|||+++|.++||+.++||+||||||||+++++ |+|||+|||+||||+|+
T Consensus       137 rs~i~~a~~eff~~~gF~eV~tP~i~~~~~EGg~elF~v~yf~~~a~LtqS~QLyke~~~~a-l~rVf~igP~FRAE~s~  215 (435)
T COG0017         137 RSSILRAIREFFYENGFTEVHTPIITASATEGGGELFKVDYFDKEAYLTQSPQLYKEALAAA-LERVFTIGPTFRAEKSN  215 (435)
T ss_pred             HHHHHHHHHHHHHhCCcEEecCceEeccCCCCCceeEEEeecCcceEEecCHHHHHHHHHHH-hCceEEecCceecCCCC
Confidence            99999999999999999999999999999999999999999999999999999999988776 99999999999999999


Q ss_pred             CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccC--CCCCccccHHHHHHHHH
Q 013856          331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY--KPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~--~~p~~rit~~eai~ll~  408 (435)
                      |.|||.||||+|.||+|++ ++|+|+++|+||+++++.+.++|..+|+.+++  +...++.  ..||+||||.|||++|+
T Consensus       216 T~RHL~EF~~ld~Emaf~~-~~d~m~l~E~~i~~i~~~v~e~~~~el~~l~~--~~~~l~~~~~~pf~ritY~eAieiL~  292 (435)
T COG0017         216 TRRHLSEFWMLDPEMAFAD-LNDVMDLAEELIKYLFKKVLEECADELEFLGR--DNSELKRPESAPFPRITYKEAIEILE  292 (435)
T ss_pred             CcchhhhHheecceeccCc-HHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhc--cchhhcccccCCccEEEHHHHHHHHH
Confidence            9999999999999999998 99999999999999999999999999999876  2233433  35899999999999999


Q ss_pred             HcCCC-CCCCCCCCcHHHHHHHHHH
Q 013856          409 DAGVE-IDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       409 ~~g~~-~~~~~dl~te~E~~L~~~v  432 (435)
                      +.|.+ +.|++||++++||+|++..
T Consensus       293 ~~~~e~~~~GdDl~~e~Er~l~e~~  317 (435)
T COG0017         293 EKGFEKVEWGDDLGTEHERYLGEEY  317 (435)
T ss_pred             hcCCcccCCCCccCCHHHHHHHHHh
Confidence            99998 9999999999999999643

>PLN02502 lysyl-tRNA synthetase

Probab=100.00  E-value=4.8e-75  Score=615.88  Aligned_cols=370  Identities=24%  Similarity=0.365  Sum_probs=300.1

Q ss_pred             CCccccChhHHHHHHHHHHHHHHHHHHHHHHHH--Hhh--------hcccccCCCCCCccCCChhhhhcc----CCCCCC
Q 013856           16 SSSQSISKKAAKKEAAKKAKEERRKEAEAAASA--ASA--------LSIEEEGPLANNYGDVPLQELQSV----NDPQTG   81 (435)
Q Consensus        16 ~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~--~~~--------~~~~~~d~~~~~Yg~~~~~~~~~~----~~pyp~   81 (435)
                      ..++++||+++||++|+++++++++++++++++  ++.        .+++.++.++++|..+|...++.+    .|||||
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~g~~pyp~   82 (553)
T PLN02502          3 SNGEPLSKNALKKRLKAKQAEEEKAAKEEAKAAAAAAAAKGRSRKSAAADDETMDPTQYRANRLKKVEALRAKGVEPYPY   82 (553)
T ss_pred             CCcccccHHHHHHHHhhhhhhHHHhhhHhhcccccccccCccccccccccccccCHHHHHHHHHHHHHHHHHcCCCCCCC
Confidence            467899999999999999999888765432211  000        111222456678888888776653    599999


Q ss_pred             CccccccCccee-Eeccc--cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCC-HHHHHHHhcC
Q 013856           82 KWSEAVSGREWT-EVGAL--NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVS-KEMVRFVRSL  157 (435)
Q Consensus        82 ~~~~~~~~~~~~-~i~~l--~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~-~~~~~~~~~l  157 (435)
                      +|+++++..++. .+..+  ++...|++|+|+|||+++|.+| |++|++|||+++.||||+..+....+ ..+..+...|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~G-k~~F~~LrD~~g~iQv~~~~~~~~~~~~~~~~~~~~l  161 (553)
T PLN02502         83 KFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKRAFG-KLAFYDLRDDGGKIQLYADKKRLDLDEEEFEKLHSLV  161 (553)
T ss_pred             CCCCCccHHHHHHHhhccccccccCCCEEEEEEEEEEEecCC-CeEEEEEecCCccEEEEEECccccchhHHHHHHHhCC
Confidence            999998876542 23333  3456789999999999999999 89999999999999999986532111 2355555679


Q ss_pred             CCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccce
Q 013856          158 SNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRV  236 (435)
Q Consensus       158 ~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~  236 (435)
                      +.||+|.|+|++.++.      ++++||++++|.|||+| .+||....                   +..+.++|+++||
T Consensus       162 ~~gdiV~V~G~~~~t~------~gelel~~~~i~vLs~~l~plP~k~~-------------------~~~d~e~r~r~Ry  216 (553)
T PLN02502        162 DRGDIVGVTGTPGKTK------KGELSIFPTSFEVLTKCLLMLPDKYH-------------------GLTDQETRYRQRY  216 (553)
T ss_pred             CCCcEEEEEEEEEecC------CCCEEEEEeEEEEEeccCCCCCcccc-------------------cccchhhhccchh
Confidence            9999999999998643      47899999999999999 89997533                   3478999999999


Q ss_pred             eeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhccCC
Q 013856          237 IDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSICGD  313 (435)
Q Consensus       237 Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~~g  313 (435)
                      |||| ++.++++|++||.|+++||+||+++||+||+||+|++++.++++.+|.+  +||+.++||+||||||||+|++||
T Consensus       217 Ldl~~n~~~~~i~r~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~gGA~a~pF~t~~n~~~~~~yL~~Spel~lK~L~v~g  296 (553)
T PLN02502        217 LDLIANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDLYLRIATELHLKRLVVGG  296 (553)
T ss_pred             hhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeeeccCCCccccceeeecccCCcceeeecCHHHHHHHHHHhc
Confidence            9996 6999999999999999999999999999999999987543223458988  789999999999999999999999


Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCC
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP  393 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~  393 (435)
                      ++||||||||||||+++ .|||||||||||||+|++ |+|+|+++|+||+++++.+.+.|...       +....++|..
T Consensus       297 ~~rVfeIg~~FRnE~~~-~rH~pEFtmlE~y~a~~d-~~dlm~~~E~li~~i~~~v~~~~~~~-------~~~~~i~~~~  367 (553)
T PLN02502        297 FERVYEIGRQFRNEGIS-TRHNPEFTTCEFYQAYAD-YNDMMELTEEMVSGMVKELTGSYKIK-------YHGIEIDFTP  367 (553)
T ss_pred             cCCEEEEcCeeeCCCCC-CccccceeehhhhhhcCC-HHHHHHHHHHHHHHHHHHHhcccccc-------cCCccccCCC
Confidence            99999999999999985 599999999999999996 99999999999999999998776533       2334577888


Q ss_pred             CCccccHHHHHHHHHHcCCCCCCCCCCCcHH
Q 013856          394 KTLRLTFEEGVQMLKDAGVEIDPLGDLNTES  424 (435)
Q Consensus       394 p~~rit~~eai~ll~~~g~~~~~~~dl~te~  424 (435)
                      ||+|+||.||++  +..|++++.  |++.++
T Consensus       368 p~~rit~~e~l~--~~~g~~~~~--~~~~~~  394 (553)
T PLN02502        368 PFRRISMISLVE--EATGIDFPA--DLKSDE  394 (553)
T ss_pred             CceeccHHHHHH--HHhCCCCCc--CCCHHH
Confidence            999999999997  556776543  344443

>PRK05159 aspC aspartyl-tRNA synthetase; Provisional

Probab=100.00  E-value=8.7e-73  Score=588.69  Aligned_cols=314  Identities=39%  Similarity=0.616  Sum_probs=285.9

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      .+.+++|.+...|++|+|+|||+++|.+| |++|++|||+++.||||++.+.  + ++++++++.|+.||+|.|+|+|..
T Consensus         4 ~~~~~~l~~~~~g~~V~i~GrV~~~R~~g-k~~Fl~LrD~~g~iQ~v~~~~~--~-~~~~~~~~~L~~gs~V~v~G~v~~   79 (437)
T PRK05159          4 RHLTSELTPELDGEEVTLAGWVHEIRDLG-GIAFLILRDRSGIIQVVVKKKV--D-EELFETIKKLKRESVVSVTGTVKA   79 (437)
T ss_pred             eeEhhhCChhhCCCEEEEEEEeEeeecCC-CeEEEEEEcCCcEEEEEEeCCc--c-HHHHHHHhCCCCCcEEEEEEEEEc
Confidence            46788898888999999999999999999 8999999999999999998653  2 678899999999999999999987


Q ss_pred             CCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHH
Q 013856          172 PDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI  250 (435)
Q Consensus       172 ~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~  250 (435)
                      +++    ..+++||++++|+|||+| .++|+...+.                 ...+.++|++|||||||++.++++|++
T Consensus        80 ~~~----~~~~~el~~~~i~vls~a~~~~P~~~~~~-----------------~~~~~~~~~~~r~Ldlr~~~~~~~l~~  138 (437)
T PRK05159         80 NPK----APGGVEVIPEEIEVLNKAEEPLPLDISGK-----------------VLAELDTRLDNRFLDLRRPRVRAIFKI  138 (437)
T ss_pred             CCC----CCCCEEEEEeEEEEEeCCCCCCCCCcccc-----------------ccCCHHHHhhCcceecCCHHHHHHHHH
Confidence            542    236799999999999999 7999875432                 114579999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCC
Q 013856          251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY  330 (435)
Q Consensus       251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~  330 (435)
                      ||.|+++||+||.++||+||+||+|+++++|||++.|.++|||.++||+||||||||+++++|++|||+||||||||+++
T Consensus       139 Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~~~~~~~~~~L~~Spql~~q~l~~~g~~rVf~i~~~FR~E~~~  218 (437)
T PRK05159        139 RSEVLRAFREFLYENGFTEIFTPKIVASGTEGGAELFPIDYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHN  218 (437)
T ss_pred             HHHHHHHHHHHHHHCCCEEEeCCcccccCCCCCcceEeEEecCCceEecCCHHHHHHHHHhcCCCcEEEEeceeeCCCCC
Confidence            99999999999999999999999999889999999999999999999999999999999999999999999999999998


Q ss_pred             CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHc
Q 013856          331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDA  410 (435)
Q Consensus       331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~  410 (435)
                      |+|||||||||||||+|.++|+++|+++|+||+++++.+.++|..++..++..++    .+..||+||||.||+++|++.
T Consensus       219 t~rHl~EFt~lE~e~a~~~~~~~lm~~~e~lv~~i~~~~~~~~~~~i~~~~~~~~----~~~~~f~rit~~eA~~~l~~~  294 (437)
T PRK05159        219 TSRHLNEYTSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIELP----VPETPIPRITYDEAIEILKSK  294 (437)
T ss_pred             CcccchhhheeeeeeeecccHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhccCCC----cCCCCceEeEHHHHHHHHHHc
Confidence            8999999999999999997799999999999999999999999888877664332    134699999999999999999


Q ss_pred             CCCCCCCCCCCcHHHHHHHHHHhc
Q 013856          411 GVEIDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       411 g~~~~~~~dl~te~E~~L~~~vke  434 (435)
                      |.+++|++|+++++|+.|+++|.+
T Consensus       295 ~~~~~~~~~~~~~~e~~l~~~~~~  318 (437)
T PRK05159        295 GNEISWGDDLDTEGERLLGEYVKE  318 (437)
T ss_pred             CCCCCCCCCCCcHHHHHHHHHHhh
Confidence            999999999999999999999865

>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type

Probab=100.00  E-value=5.6e-73  Score=588.24  Aligned_cols=311  Identities=38%  Similarity=0.601  Sum_probs=281.0

Q ss_pred             EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCC
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPD  173 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~  173 (435)
                      .+++++.++.|++|+|+|||+++|.+| |++|++|||+++.||||++.+.  +++++++++..|+.||+|.|+|+|+..+
T Consensus         2 ~~~~l~~~~~g~~v~i~G~v~~~R~~g-~~~Fi~lrd~~g~iQ~v~~~~~--~~~~~~~~~~~l~~~s~v~v~G~v~~~~   78 (428)
T TIGR00458         2 YSADIKPEMDGQEVTFMGWVHEIRDLG-GLIFVLLRDREGLIQITAPAKK--VSKNLFKWAKKLNLESVVAVRGIVKIKE   78 (428)
T ss_pred             chhhCchhhCCCEEEEEEEEEEEecCC-CcEEEEEEeCCeeEEEEEECCc--CCHHHHHHHhCCCCCcEEEEEEEEEecC
Confidence            356677788899999999999999999 6999999999999999998642  5778999999999999999999998543


Q ss_pred             ccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHH
Q 013856          174 VEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQS  252 (435)
Q Consensus       174 ~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs  252 (435)
                          ..++++||++++|+|||+| .+||++.++.                 ...+.++|++|||||||++..+++|++||
T Consensus        79 ----~~~~~~el~~~~i~vl~~~~~~lP~~~~~~-----------------~~~~~~~r~~~R~ldlr~~~~~~~~r~Rs  137 (428)
T TIGR00458        79 ----KAPGGFEIIPTKIEVINEAKEPLPLDPTEK-----------------VPAELDTRLDYRFLDLRRPTVQAIFRIRS  137 (428)
T ss_pred             ----CCCCcEEEEEeEEEEEecCCCCCCCCcccc-----------------CCCCHHHHhhhhhhhhCCHHHHHHHHHHH
Confidence                1347899999999999999 8999987653                 12578999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCC
Q 013856          253 QVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTH  332 (435)
Q Consensus       253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~  332 (435)
                      .|++++|+||.++||+||+||+|+++++|||+++|.++||+.++||+||||||||+++++|++|||+||||||||+++|+
T Consensus       138 ~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~v~~~~~~~yL~~Spql~~q~li~~g~~rVf~i~~~FR~E~~~t~  217 (428)
T TIGR00458       138 GVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPITYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTH  217 (428)
T ss_pred             HHHHHHHHHHHHCCCEEEeCCceecCCCCCCcceeeeEecCCcEEECcCHHHHHHHHHhcccCcEEEEecccccCCCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999889


Q ss_pred             ccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHcCC
Q 013856          333 RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGV  412 (435)
Q Consensus       333 rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g~  412 (435)
                      |||||||||||||+|++ |+|+|+++|+||+++++.+.++|..+++.++..++.    ...||+||||.||+++|++.|+
T Consensus       218 rHl~EFt~lE~e~a~~~-~~dlm~~~e~li~~i~~~~~~~~~~~~~~~~~~~~~----~~~pf~rity~eA~~~l~~~g~  292 (428)
T TIGR00458       218 RHLNEATSIDIEMAFED-HHDVMDILEELVVRVFEDVPERCAHQLETLEFKLEK----PEGKFVRLTYDEAIEMANAKGV  292 (428)
T ss_pred             cchheeeEeeeeeccCC-HHHHHHHHHHHHHHHHHHHHhcchhhhhhccccccc----CCCCceEEEHHHHHHHHHHcCC
Confidence            99999999999999996 999999999999999999999988877654332211    1358999999999999999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHh
Q 013856          413 EIDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       413 ~~~~~~dl~te~E~~L~~~vk  433 (435)
                      +++|++||++++|++|++.+.
T Consensus       293 ~~~~~~~l~~~~E~~l~~~~~  313 (428)
T TIGR00458       293 EIGWGEDLSTEAEKALGEEMD  313 (428)
T ss_pred             CCCCccccchHHHHHHHHHhC
Confidence            999999999999999998653

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).

>PLN02221 asparaginyl-tRNA synthetase

Probab=100.00  E-value=6.8e-70  Score=576.64  Aligned_cols=304  Identities=27%  Similarity=0.403  Sum_probs=265.6

Q ss_pred             CCCCCCEEEEEEEEeeeccCCC-ceEEEEEEeCC--eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC
Q 013856          100 GSLKDQEVLIRGRVHTTRPVGN-KLAFVVVRERV--STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI  176 (435)
Q Consensus       100 ~~~~g~~V~v~GrV~~~R~~G~-kl~Fl~Lrd~~--~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~  176 (435)
                      ..+.|+.|+|+||||++|.+|+ +++|++|||++  +.||||+..+..       .....|+.||+|.|+|+|+.++. .
T Consensus        46 ~~~~g~~V~I~GWV~~iR~~Gk~~i~Fl~LRDgs~~g~iQvVv~~~~~-------~~~~~L~~ES~V~V~G~V~~~~~-~  117 (572)
T PLN02221         46 AGLAGQKVRIGGWVKTGREQGKGTFAFLEVNDGSCPANLQVMVDSSLY-------DLSTLVATGTCVTVDGVLKVPPE-G  117 (572)
T ss_pred             hhcCCCEEEEEEEEEehhhCCCceEEEEEEeCCcccccEEEEEcCchh-------hHHhcCCCceEEEEEEEEEeCCc-c
Confidence            5788999999999999999996 48999999999  799999975311       11236899999999999987654 3


Q ss_pred             CCCceeEEEEEeEEEEeecC-C-CCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHH
Q 013856          177 KGATQQVEVQIKKLYCVSRA-A-KTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQV  254 (435)
Q Consensus       177 ~~~t~~lEI~v~~i~vls~~-~-~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i  254 (435)
                      ++++|++||++++|.|||+| . ++|++...                    .+.++++++|||++|++..+++||+||.|
T Consensus       118 ~~~~~~iEl~v~~i~vl~~a~~~~~Pi~~~~--------------------~~~e~lrr~~hLR~R~~~~~Ai~RiRS~i  177 (572)
T PLN02221        118 KGTKQKIELSVEKVIDVGTVDPTKYPLPKTK--------------------LTLEFLRDVLHLRSRTNSISAVARIRNAL  177 (572)
T ss_pred             CCCCccEEEEEeEEEEEecCCCCCCCCCCCc--------------------CChHHHhhcchhhcCCHHHHHHHHHHHHH
Confidence            45678999999999999999 3 78876332                    35788889999999999999999999999


Q ss_pred             HHHHHHHhhcCCeeeecCceeeecCCCCCcceeee---------------------------------------------
Q 013856          255 GNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL---------------------------------------------  289 (435)
Q Consensus       255 ~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~---------------------------------------------  289 (435)
                      +++||+||.++||+||+||+|++++||||++.|.|                                             
T Consensus       178 ~~aiR~ff~~~gFiEI~TP~Lt~s~~EGg~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  257 (572)
T PLN02221        178 AFATHSFFQEHSFLYIHTPIITTSDCEGAGEMFQVTTLINYTERLEQDLIDNPPPTEADVEAARLIVKERGEVVAQLKAA  257 (572)
T ss_pred             HHHHHHHHHHCCCEEEeCCeeccccCCCCccceeeeecccccccccccccccCcccchhhhhhhhhhhhhcchhhhhhcc
Confidence            99999999999999999999999999999999876                                             


Q ss_pred             ---------------------------------------------ccCCCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856          290 ---------------------------------------------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVF  324 (435)
Q Consensus       290 ---------------------------------------------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F  324 (435)
                                                                   +|||+++||+||||||||+++ +||+|||+|||||
T Consensus       258 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dyFg~~ayLtqS~QLy~e~~~-~~l~rVfeIgP~F  336 (572)
T PLN02221        258 KASKEEITAAVAELKIAKESLAHIEERSKLKPGLPKKDGKIDYSKDFFGRQAFLTVSGQLQVETYA-CALSSVYTFGPTF  336 (572)
T ss_pred             ccchhhhhhhhhhhhhhhhhhhhhhhhhhcccCCcccccccccccccCCCCeeeccCHHHHHHHHH-HhcCCeEEEccce
Confidence                                                         799999999999999999865 5799999999999


Q ss_pred             ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc---cc--cCCCCCcccc
Q 013856          325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE---PL--KYKPKTLRLT  399 (435)
Q Consensus       325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~---~~--~~~~p~~rit  399 (435)
                      |||+++|+||||||||||+||+|.+ |+|+|+++|+||+++++.+.++|.++++.+...++..   .+  .+..||+|||
T Consensus       337 RAE~s~T~RHL~EFtmlE~Emaf~d-~~dvm~l~E~lv~~i~~~l~~~~~~~l~~l~~~~~~~~~~~l~~~~~~pf~RIt  415 (572)
T PLN02221        337 RAENSHTSRHLAEFWMVEPEIAFAD-LEDDMNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCIDRLRMVASTPFGRIT  415 (572)
T ss_pred             ecCCCCCCcccccccceeeeeecCC-HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCchhhhhhhhccCCCceEEE
Confidence            9999999999999999999999996 8999999999999999999999999998876554321   11  1346999999


Q ss_pred             HHHHHHHHHHc---CCC----CCCCCCCCcHHHHHHHHHHh
Q 013856          400 FEEGVQMLKDA---GVE----IDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       400 ~~eai~ll~~~---g~~----~~~~~dl~te~E~~L~~~vk  433 (435)
                      |.||+++|++.   |.+    +.|++||++++|++|++++.
T Consensus       416 y~EAi~~L~~~~~~g~~~~~~~~~G~dl~~e~Er~L~~~~~  456 (572)
T PLN02221        416 YTEAIELLEEAVAKGKEFDNNVEWGIDLASEHERYLTEVLF  456 (572)
T ss_pred             HHHHHHHHHhhhhcCCCCCCCcchhhhhhHHHHHHHHHHhc
Confidence            99999999984   543    46889999999999999853

>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial

Probab=100.00  E-value=4.1e-70  Score=574.75  Aligned_cols=302  Identities=24%  Similarity=0.392  Sum_probs=257.1

Q ss_pred             CCCCCCCccccccCcce-eEeccccC---CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856           76 NDPQTGKWSEAVSGREW-TEVGALNG---SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV  151 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~~-~~i~~l~~---~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~  151 (435)
                      .|||||+|+++++..++ ..+.++..   ...|++|+|+|||+++|.+| |++|++|||++++||+|++.+.  ++++++
T Consensus        21 ~~~yp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~g-k~~F~~l~D~~g~iQ~~~~~~~--~~~~~~   97 (496)
T TIGR00499        21 NNPYLNKFERTHSSQEFQEEYADLSNEELEDKNIEVSIAGRIMARRSMG-KATFITLQDESGQIQLYVNKDD--LPEDFY   97 (496)
T ss_pred             CCCCCCCCCCCcCHHHHHHHhhccCccchhcCCCEEEEEEEEEEEecCC-CeEEEEEEcCCccEEEEEECCc--CcHHHH
Confidence            48999999998877543 12222221   24588999999999999988 8999999999999999998642  566777


Q ss_pred             HHHhc-CCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcc
Q 013856          152 RFVRS-LSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQD  229 (435)
Q Consensus       152 ~~~~~-l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e  229 (435)
                      ++... |+.||+|.|+|++.++.      +|++||++++|.+||+| .+||....+                   ..+.+
T Consensus        98 ~~~~~~l~~gd~V~v~G~~~~t~------~gelel~~~~i~ilsk~~~plP~k~~~-------------------~~d~e  152 (496)
T TIGR00499        98 EFDEYLLDLGDIIGVTGYPFKTK------TGELSVHVTELQILTKALRPLPDKFHG-------------------LTDQE  152 (496)
T ss_pred             HHHHhcCCCCCEEEEEEEEEECC------CCcEEEEeeEEEEEecCCCCCCccccc-------------------cCChh
Confidence            77764 89999999999997643      47899999999999999 899976432                   36889


Q ss_pred             cccccceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeecc--CCCceeeccChHHHH
Q 013856          230 TRLNNRVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSACLAQSPQLHK  306 (435)
Q Consensus       230 ~rl~~R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~--~~~~~~L~~Spql~l  306 (435)
                      +||++||||||+ +.++++|++||.|+++||+||.++||+||+||+|++..+++++.||.+.|  |+.++||+|||||||
T Consensus       153 ~r~r~R~Ldl~~n~~~~~~~r~Rs~i~~~iR~fl~~~gF~EVeTP~L~~~~gga~a~pF~t~~~~~~~~~yLriSpELyl  232 (496)
T TIGR00499       153 TRYRQRYLDLIVNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITHHNALDMDLYLRIAPELYL  232 (496)
T ss_pred             hhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCcCEEEeCCeeecCCCCccceeEEeecccCCCceEEecCHHHHH
Confidence            999999999996 89999999999999999999999999999999998654322346899865  999999999999999


Q ss_pred             hhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCC
Q 013856          307 QMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPF  386 (435)
Q Consensus       307 q~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~  386 (435)
                      |+|++||++||||||||||||++ +.|||||||||||||+|++ |+|+|+++|+||+++++.+.+.+...       ++.
T Consensus       233 KrlivgG~~rVfeIg~~FRnE~~-~~rH~pEFTmlE~y~a~~d-~~dlm~~~E~li~~i~~~l~~~~~~~-------~~~  303 (496)
T TIGR00499       233 KRLIVGGFEKVYEIGRNFRNEGV-DTTHNPEFTMIEFYQAYAD-YEDLMDLTENLFKFLAQELLGTTKIT-------YGE  303 (496)
T ss_pred             HHHHhCCCCceEEEecceecCCC-CCcccchhheeehhhhcCC-HHHHHHHHHHHHHHHHHHHhccccee-------cCc
Confidence            99999999999999999999998 4699999999999999996 99999999999999999998766432       233


Q ss_pred             ccccCCCCCccccHHHHHHHHH-HcCCCC
Q 013856          387 EPLKYKPKTLRLTFEEGVQMLK-DAGVEI  414 (435)
Q Consensus       387 ~~~~~~~p~~rit~~eai~ll~-~~g~~~  414 (435)
                      ..+++..||+||||.||+++|. ..|+++
T Consensus       304 ~~~~~~~pf~rit~~eai~~~~~~~g~~~  332 (496)
T TIGR00499       304 LEIDFKKPFKRITMVEAIKKYDMETGIDF  332 (496)
T ss_pred             eeccCCCCceEEEHHHHHHHHHHhcCCCc
Confidence            3466778999999999999885 468765

This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.

>PRK03932 asnC asparaginyl-tRNA synthetase; Validated

Probab=100.00  E-value=8.9e-69  Score=559.96  Aligned_cols=307  Identities=27%  Similarity=0.413  Sum_probs=274.0

Q ss_pred             Eeccc-cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           94 EVGAL-NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        94 ~i~~l-~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      .++++ ...+.|++|+|+|||+++|.+| |++|++|||+++.+|+++..+.   +.+++++++.|+.||+|.|+|++..+
T Consensus         5 ~~~~~~~~~~~~~~V~i~G~v~~~R~~g-~~~Fi~lrD~~g~iq~~~~~~~---~~~~~~~~~~l~~~s~v~v~G~v~~~   80 (450)
T PRK03932          5 SIKDILKGKYVGQEVTVRGWVRTKRDSG-KIAFLQLRDGSCFKQLQVVKDN---GEEYFEEIKKLTTGSSVIVTGTVVES   80 (450)
T ss_pred             EHHHhcccccCCCEEEEEEEEEEEEeCC-CeEEEEEECCCCcEEEEEEcCC---ChHHHHHHhcCCCCcEEEEEEEEEcC
Confidence            34554 4578899999999999999998 8999999999999999997643   46788899999999999999999865


Q ss_pred             CccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHH
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ  251 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~r  251 (435)
                      +    ..++++||++++++||++| .++|+..++                    .+.++|+++||||||++.++++|++|
T Consensus        81 ~----~~~~~~el~~~~i~vl~~~~~~~p~~~~~--------------------~~~~~~~~~r~l~lR~~~~~~~l~~R  136 (450)
T PRK03932         81 P----RAGQGYELQATKIEVIGEDPEDYPIQKKR--------------------HSIEFLREIAHLRPRTNKFGAVMRIR  136 (450)
T ss_pred             C----CCCCCEEEEEEEEEEccCCCCCCCCCccc--------------------cChHHHhhCceeeccCHHHHHHHHHH
Confidence            4    2346899999999999999 889987543                    24588999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee---------ccCCCceeeccChHHHHhhhccCCCceeEEEec
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL---------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGP  322 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~---------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp  322 (435)
                      |.|++++|+||.++||+||+||+|+++++||++++|.|         +|||.++||+||||||||++ ++|++|||+|||
T Consensus       137 s~i~~~iR~f~~~~gf~EV~TP~L~~~~~eg~~~~F~v~~~~~~~~~~~~~~~~~L~~Spql~lq~l-~~g~~rVf~i~~  215 (450)
T PRK03932        137 NTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEAY-AMALGKVYTFGP  215 (450)
T ss_pred             HHHHHHHHHHHHHCCCEEecCCceeccCCCCCCCceEeecccccccccccCCCcccccCHHHHHHHH-HhccCCeEEeee
Confidence            99999999999999999999999999999999999999         89999999999999999985 589999999999


Q ss_pred             ceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcccc-----CCCCCcc
Q 013856          323 VFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLK-----YKPKTLR  397 (435)
Q Consensus       323 ~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~-----~~~p~~r  397 (435)
                      |||||+++|.|||||||||||||+|++ |+|+|+++|+||+++++.+.++|..+|+.++..++...+.     ...||+|
T Consensus       216 ~FR~E~~~t~rHl~EFt~lE~e~~~~~-~~~~m~~~e~li~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~p~~r  294 (450)
T PRK03932        216 TFRAENSNTRRHLAEFWMIEPEMAFAD-LEDNMDLAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDIERLENFIESPFPR  294 (450)
T ss_pred             ccccCCCCCccccccccccceEEeccC-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHhccccCchHHHHHHhhcCCCceE
Confidence            999999999999999999999999996 9999999999999999999999999998887655433221     3369999


Q ss_pred             ccHHHHHHHHHHcCCC----CCCCCCCCcHHHHHHHH
Q 013856          398 LTFEEGVQMLKDAGVE----IDPLGDLNTESERKLGQ  430 (435)
Q Consensus       398 it~~eai~ll~~~g~~----~~~~~dl~te~E~~L~~  430 (435)
                      |||.||+++|++.|.+    +.|+.||++++|++|++
T Consensus       295 ity~eA~~~l~~~~~~~~~~~~~g~~l~~~~e~~l~~  331 (450)
T PRK03932        295 ITYTEAIEILQKSGKKFEFPVEWGDDLGSEHERYLAE  331 (450)
T ss_pred             eEHHHHHHHHHHcCCCcCCCCCcccccChHHHHHHHH
Confidence            9999999999998864    36788999999999997

>PTZ00417 lysine-tRNA ligase; Provisional

Probab=100.00  E-value=7.1e-68  Score=563.13  Aligned_cols=323  Identities=19%  Similarity=0.278  Sum_probs=264.0

Q ss_pred             cccccCCCCCCccCCChhhhhcc----CCCCCCCccccccCcce-eEecccc--CCCCCCEEEEEEEEeeeccCCCceEE
Q 013856           53 SIEEEGPLANNYGDVPLQELQSV----NDPQTGKWSEAVSGREW-TEVGALN--GSLKDQEVLIRGRVHTTRPVGNKLAF  125 (435)
Q Consensus        53 ~~~~~d~~~~~Yg~~~~~~~~~~----~~pyp~~~~~~~~~~~~-~~i~~l~--~~~~g~~V~v~GrV~~~R~~G~kl~F  125 (435)
                      ..+++|.+++.|...|...++.+    .|||||+|+++++..++ ..+.++.  +...++.|+|+|||+++|.+|+|++|
T Consensus        74 ~~~~~~~~~~~~~~~r~~k~~~l~~~g~~pyp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G~k~~F  153 (585)
T PTZ00417         74 KEEEAEVDPRLYYENRSKFIQEQKAKGINPYPHKFERTITVPEFVEKYQDLASGEHLEDTILNVTGRIMRVSASGQKLRF  153 (585)
T ss_pred             ccccccCChHHHHHHHHHHHHHHHhcCCCCCCCCCcCCcCHHHHHHHhhccCccccccCCeEEEEEEEEeeecCCCCCEE
Confidence            34667899999999998776654    59999999999887553 2233322  22345679999999999999988999


Q ss_pred             EEEEeCCeEEEEEEeeCCCCCCHHHHH-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCccc
Q 013856          126 VVVRERVSTVQCLATVKPDSVSKEMVR-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITI  203 (435)
Q Consensus       126 l~Lrd~~~~iQvv~~~~~~~~~~~~~~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~  203 (435)
                      ++|||++++||||+..+....+.+.++ +.+.|+.||+|.|+|.+.+      +.+|++||.+++|.+||+| .+||+..
T Consensus       154 ~~L~d~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~------t~~gel~i~~~~i~llsk~l~~lP~~~  227 (585)
T PTZ00417        154 FDLVGDGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGK------SKKGELSIFPKETIILSPCLHMLPMKY  227 (585)
T ss_pred             EEEEeCCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcC------CCCceEEEEEEEEEEEecCCCCCCccc
Confidence            999999999999998653222233333 3578999999999999764      3357999999999999999 8999752


Q ss_pred             ccccchHHHHHhhhhcCCCCCCCCcccccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCC
Q 013856          204 EDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG  282 (435)
Q Consensus       204 ~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~eg  282 (435)
                                          +..+.++|+++|||||| ++..+++|++||.|+++||+||.++||+||+||+|++..  |
T Consensus       228 --------------------g~~d~e~r~r~RyLdL~~n~~~~~ifr~RS~Ii~aiR~Ff~~rGFlEVeTPiL~~~~--G  285 (585)
T PTZ00417        228 --------------------GLKDTEIRYRQRYLDLMINESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNLVA--G  285 (585)
T ss_pred             --------------------CCCCcccccccchhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCeEEEeCCeeeccC--C
Confidence                                34678999999999999 589999999999999999999999999999999999763  4


Q ss_pred             Ccc--eeee--ccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHH
Q 013856          283 GSA--VFRL--DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIV  358 (435)
Q Consensus       283 ga~--~F~~--~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~  358 (435)
                      ||.  ||.+  ++++.++||++|||||||+|++||++||||||||||||++ +.||||||||||||++|++ |+|+|+++
T Consensus       286 GA~a~PF~T~~n~~d~~lYLriSpEL~lKrLlvgG~~rVfeIgp~FRnE~~-~~rHnpEFTmlE~y~ay~d-y~dlM~l~  363 (585)
T PTZ00417        286 GANARPFITHHNDLDLDLYLRIATELPLKMLIVGGIDKVYEIGKVFRNEGI-DNTHNPEFTSCEFYWAYAD-FYDLIKWS  363 (585)
T ss_pred             cccceeEEecccCCCcceEEeecHHHHHHHHHHhCCCCEEEEcccccCCCC-CCCccceeeeeeeeeecCC-HHHHHHHH
Confidence            444  8987  6899999999999999999999999999999999999998 5699999999999999996 99999999


Q ss_pred             HHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856          359 DCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ  405 (435)
Q Consensus       359 e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~  405 (435)
                      |+||++++..+.+.+...+...+.......+++..||+|+||.||++
T Consensus       364 E~Li~~v~~~v~g~~~~~~~~~g~~~~~~~i~~~~pf~rit~~ea~~  410 (585)
T PTZ00417        364 EDFFSQLVMHLFGTYKILYNKDGPEKDPIEIDFTPPYPKVSIVEELE  410 (585)
T ss_pred             HHHHHHHHHHhcCcceeeecccccccccccccCCCCceeccHHHHHH
Confidence            99999999988765432221111111122456778999999888876

>TIGR00457 asnS asparaginyl-tRNA synthetase

Probab=100.00  E-value=2.4e-67  Score=548.98  Aligned_cols=302  Identities=26%  Similarity=0.410  Sum_probs=267.9

Q ss_pred             CCCCCEEEEEEEEeeeccCCCceEEEEEEeCC--eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCC
Q 013856          101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERV--STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG  178 (435)
Q Consensus       101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~--~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~  178 (435)
                      .+.|++|+|+|||+++|.+| +++|++|||++  +.||||++.+   .+.++++++..|+.||+|.|+|+|..++    +
T Consensus        13 ~~~g~~v~v~Gwv~~~R~~~-~~~F~~lrD~~~~g~iQ~v~~~~---~~~~~~~~~~~l~~gs~V~v~G~v~~~~----~   84 (453)
T TIGR00457        13 KFVGDEVTVSGWVRTKRSSK-KIIFLELNDGSSLGPIQAVINGE---DNPYLFQLLKSLTTGSSVSVTGKVVESP----G   84 (453)
T ss_pred             hcCCCEEEEEEEeEEEEcCC-CeEEEEEECCCCCccEEEEEeCC---cChHHHHHHHcCCCCcEEEEEEEEEcCC----C
Confidence            57799999999999999887 99999999999  9999999864   3467888999999999999999998743    2


Q ss_pred             CceeEEEEEeEEEEeecCC--CCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHHH
Q 013856          179 ATQQVEVQIKKLYCVSRAA--KTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGN  256 (435)
Q Consensus       179 ~t~~lEI~v~~i~vls~~~--~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~  256 (435)
                      .++++||.+++|.|||+|.  .+|++.++                    .+.++|+++||||+|++..+++|++||.|++
T Consensus        85 ~~~~~El~~~~i~vl~~~~~~~~P~~~~~--------------------~~~~~~~~~r~l~lR~~~~~~~lr~Rs~i~~  144 (453)
T TIGR00457        85 KGQPVELQVKKIEVVGEAEPDDYPLQKKE--------------------HSLEFLRDIAHLRLRTNTLGAVMRVRNALSQ  144 (453)
T ss_pred             CCCCEEEEEeEEEEEecCCccCCCCCccc--------------------cChhhHhhCcceecCCHHHHHHHHHHHHHHH
Confidence            3478999999999999993  78887543                    2467899999999999999999999999999


Q ss_pred             HHHHHhhcCCeeeecCceeeecCCCCCcceeeec---------cCCCceeeccChHHHHhhhccCCCceeEEEecceecC
Q 013856          257 IFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD---------YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAE  327 (435)
Q Consensus       257 ~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~---------~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E  327 (435)
                      ++|+||.++||+||+||+|+++++|||+++|.+.         |||+++||+||||||||++ ++|++|||+||||||||
T Consensus       145 ~~r~~~~~~gf~eV~TP~l~~~~~eg~~~~F~v~~~~~~~~~~~~~~~~yL~~Spql~lq~l-~~g~~rVf~i~~~FR~E  223 (453)
T TIGR00457       145 AIHRYFQENGFTWVSPPILTSNDCEGAGELFRVSTDGIDFSQDFFGKEAYLTVSGQLYLETY-ALALSKVYTFGPTFRAE  223 (453)
T ss_pred             HHHHHHHHCCCEEecCCeEeecCCCCCCCceEecccccccchhccCCccccccCHHHHHHHH-hhcccCceEeeeccccC
Confidence            9999999999999999999999999999999987         9999999999999999976 58999999999999999


Q ss_pred             cCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcccc-----CCCCCccccHHH
Q 013856          328 DSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLK-----YKPKTLRLTFEE  402 (435)
Q Consensus       328 ~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~-----~~~p~~rit~~e  402 (435)
                      +++|+|||||||||||||+|++ |+|+|+++|+||+++++.+.++|..+++.++..++...+.     ...||+||||.|
T Consensus       224 ~~~t~rHl~EFt~le~e~~~~~-~~dvm~~~E~lv~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~rit~~e  302 (453)
T TIGR00457       224 KSNTSRHLSEFWMIEPEMAFAN-LNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLENIINNKFARITYTD  302 (453)
T ss_pred             CCCCCcCcchhccceeeeecCC-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHhhccCCchHHHHHHHhcCCCCceeEHHH
Confidence            9988999999999999999997 9999999999999999999999988887776544322111     124899999999


Q ss_pred             HHHHHHHcCC----CCCCCCCCCcHHHHHHHHHH
Q 013856          403 GVQMLKDAGV----EIDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       403 ai~ll~~~g~----~~~~~~dl~te~E~~L~~~v  432 (435)
                      |+++|++.|.    +..|++||++++|++|++.+
T Consensus       303 a~~~l~~~~~~~~~~~~~g~~l~~~~e~~L~~~~  336 (453)
T TIGR00457       303 AIEILKESDKNFEYEDFWGDDLQTEHERFLAEEY  336 (453)
T ss_pred             HHHHHHhcCCCCcCCCCCCCCCCcHHHHHHHHHh
Confidence            9999999864    34578899999999999875

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.

>PRK12445 lysyl-tRNA synthetase; Reviewed

Probab=100.00  E-value=1e-67  Score=556.71  Aligned_cols=306  Identities=21%  Similarity=0.325  Sum_probs=254.1

Q ss_pred             ccCCChhhhhc---cCCCCCCCccccccCcce-eEeccccC---CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEE
Q 013856           64 YGDVPLQELQS---VNDPQTGKWSEAVSGREW-TEVGALNG---SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQ  136 (435)
Q Consensus        64 Yg~~~~~~~~~---~~~pyp~~~~~~~~~~~~-~~i~~l~~---~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQ  136 (435)
                      |-..|+..++.   .+.||||+|+++++..++ ..+.++..   ...|++|+|+|||+++|.+| |++|++|||++++||
T Consensus        18 ~~~~r~~k~~~l~~~g~py~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G-k~~F~~lrD~~g~iQ   96 (505)
T PRK12445         18 ELRNRREKLAALRQQGVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMG-KASFVTLQDVGGRIQ   96 (505)
T ss_pred             HHHHHHHHHHHHHHhCCCCCCCCcCccCHHHHHHHhhccCcchhhcCCCEEEEEEEEEEEecCC-CcEEEEEEeCCccEE
Confidence            44444443332   234999999999887543 12222221   24488999999999999999 889999999999999


Q ss_pred             EEEeeCCCCCCHHHHH-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHH
Q 013856          137 CLATVKPDSVSKEMVR-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIE  214 (435)
Q Consensus       137 vv~~~~~~~~~~~~~~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~  214 (435)
                      ||+..+.  ++.+.++ ....|+.||+|.|+|++.++.      +|++||+++++++||+| .+||....+         
T Consensus        97 ~~~~~~~--~~~~~~~~~~~~l~~Gd~V~v~G~~~~t~------~gelel~~~~~~llsk~~~plP~~~~~---------  159 (505)
T PRK12445         97 LYVARDS--LPEGVYNDQFKKWDLGDIIGARGTLFKTQ------TGELSIHCTELRLLTKALRPLPDKFHG---------  159 (505)
T ss_pred             EEEECCc--cchhhHHHHHhcCCCCCEEEEEEEEEecC------CCcEEEEEeEEEEEecCCCCCCccccc---------
Confidence            9998542  3333333 457899999999999998643      57899999999999999 999986433         


Q ss_pred             hhhhcCCCCCCCCcccccccceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--eeee--
Q 013856          215 KASKEGVQLPRVNQDTRLNNRVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--VFRL--  289 (435)
Q Consensus       215 ~~~~~~~~~~~~~~e~rl~~R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--~F~~--  289 (435)
                                ..+.++|+|+||||||+ +..+++|++||.|+++||+||.++||+||+||+|++.  +|||.  ||.+  
T Consensus       160 ----------~~d~e~r~r~Ryldl~~n~~~r~~~r~Rs~i~~~iR~f~~~~gFiEVeTPiL~~~--~gGa~a~pF~t~~  227 (505)
T PRK12445        160 ----------LQDQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVI--PGGASARPFITHH  227 (505)
T ss_pred             ----------ccChhhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCeeEec--CCCCcccceeccc
Confidence                      36789999999999996 8999999999999999999999999999999999864  55554  8875  


Q ss_pred             ccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHh
Q 013856          290 DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSL  369 (435)
Q Consensus       290 ~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~  369 (435)
                      +||+.++||+||||||||+|++||++||||||||||||++ |.|||||||||||||+|++ |+|+|+++|+||++++..+
T Consensus       228 ~~~~~~~yL~~SpELylKrlivgG~~rVfeIg~~FRnE~~-~~rH~pEFTmlE~y~a~~d-~~d~m~l~E~li~~l~~~~  305 (505)
T PRK12445        228 NALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGI-SVRHNPEFTMMELYMAYAD-YHDLIELTESLFRTLAQEV  305 (505)
T ss_pred             ccCCcceeeecCHHHHHHHHHhccCCcEEEEehhccCCCC-CCCcCcccceeeeeeecCC-HHHHHHHHHHHHHHHHHHH
Confidence            7899999999999999999999999999999999999997 9999999999999999996 9999999999999999988


Q ss_pred             hhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHH
Q 013856          370 NNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       370 ~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~  408 (435)
                      .+.+...       +....+++.+||+||||.||++.+.
T Consensus       306 ~~~~~~~-------~~~~~i~~~~pf~rit~~eai~~~~  337 (505)
T PRK12445        306 LGTTKVT-------YGEHVFDFGKPFEKLTMREAIKKYR  337 (505)
T ss_pred             hccccee-------cCceeccCCCCceEEEHHHHHHHHh
Confidence            7654321       3334467778999999999998663

>PRK00484 lysS lysyl-tRNA synthetase; Reviewed

Probab=100.00  E-value=2.9e-67  Score=552.90  Aligned_cols=300  Identities=24%  Similarity=0.360  Sum_probs=251.3

Q ss_pred             CCCCCCCccccccCcce----eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856           76 NDPQTGKWSEAVSGREW----TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV  151 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~~----~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~  151 (435)
                      .|||||+|.++++..++    ..+..-.....+++|+|+|||+++|.+| +++|++|||++++||||++.+.  ++++++
T Consensus        22 ~~~yp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~G~v~~~R~~g-~~~Fi~lrD~~g~iQ~v~~~~~--~~~~~~   98 (491)
T PRK00484         22 IDPYPNKFERTHTAAELRAKYDDKEKEELEELEIEVSVAGRVMLKRVMG-KASFATLQDGSGRIQLYVSKDD--VGEEAL   98 (491)
T ss_pred             CCCCCCCCcCccCHHHHHHHhccccchhhcccCcEEEEEEEEEEEecCC-ceEEEEEEcCCccEEEEEECCc--CCHHHH
Confidence            58999999998776443    2222111112347899999999999999 8999999999999999998642  456778


Q ss_pred             HHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCccc
Q 013856          152 RFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDT  230 (435)
Q Consensus       152 ~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~  230 (435)
                      +.+..|+.||+|.|+|+|..+.      +|++||+++++.|||+| .+||+...+                   ..+.++
T Consensus        99 ~~~~~l~~g~~v~v~G~v~~t~------~ge~el~~~~~~vls~~~~plP~~~~~-------------------~~~~~~  153 (491)
T PRK00484         99 EAFKKLDLGDIIGVEGTLFKTK------TGELSVKATELTLLTKSLRPLPDKFHG-------------------LTDVET  153 (491)
T ss_pred             HHHhcCCCCCEEEEEEEEEEcC------CCcEEEEEeEEEEEeccCCCCCccccc-------------------ccchhh
Confidence            8888899999999999998642      47899999999999999 899986432                   357899


Q ss_pred             ccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHh
Q 013856          231 RLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQ  307 (435)
Q Consensus       231 rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq  307 (435)
                      |+++|||||| ++.++++|++||.|+++||+||.++||+||+||+|+++.+++++.+|.+  +||+.++||+||||||||
T Consensus       154 r~r~R~lDl~~~~~~~~~~r~Rs~i~~~iR~f~~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk  233 (491)
T PRK00484        154 RYRQRYVDLIVNPESRETFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITHHNALDIDLYLRIAPELYLK  233 (491)
T ss_pred             hccceeeehhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCceeccCCCccceeeeeccccCCCceEeccCHHHHHH
Confidence            9999999998 5999999999999999999999999999999999986533323469975  789999999999999999


Q ss_pred             hhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc
Q 013856          308 MSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE  387 (435)
Q Consensus       308 ~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~  387 (435)
                      ++++||++|||+||||||||+++ .|||||||||||||+|.+ |+|+|+++|+||+++++.+.+++.  +.     +...
T Consensus       234 ~l~v~g~~rVfei~~~FR~E~~~-~rH~pEFt~lE~e~a~~d-~~d~m~~~E~li~~i~~~~~~~~~--i~-----~~~~  304 (491)
T PRK00484        234 RLIVGGFERVYEIGRNFRNEGID-TRHNPEFTMLEFYQAYAD-YNDMMDLTEELIRHLAQAVLGTTK--VT-----YQGT  304 (491)
T ss_pred             HHHhccCCcEEEEecceecCCCC-CCcCCceEEEEEEEecCC-HHHHHHHHHHHHHHHHHHHhCCce--Ee-----cCCE
Confidence            99999999999999999999985 599999999999999995 999999999999999999876422  21     2222


Q ss_pred             cccCCCCCccccHHHHHHHHHHcCCCC
Q 013856          388 PLKYKPKTLRLTFEEGVQMLKDAGVEI  414 (435)
Q Consensus       388 ~~~~~~p~~rit~~eai~ll~~~g~~~  414 (435)
                      .+++..||+||||.||++.+  .|+++
T Consensus       305 ~~~~~~pf~rity~eai~~~--~g~~~  329 (491)
T PRK00484        305 EIDFGPPFKRLTMVDAIKEY--TGVDF  329 (491)
T ss_pred             eecCCCCceEEEHHHHHHHH--hCCCc
Confidence            35667899999999999854  45544

>PLN02603 asparaginyl-tRNA synthetase

Probab=100.00  E-value=2.9e-66  Score=548.89  Aligned_cols=301  Identities=23%  Similarity=0.351  Sum_probs=262.1

Q ss_pred             CCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCe--EEEEEEeeCCCCCCHHHHHHHh--cCCCCceEEEEEEEecCCcc
Q 013856          100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVS--TVQCLATVKPDSVSKEMVRFVR--SLSNESIVDVIGVVSVPDVE  175 (435)
Q Consensus       100 ~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~--~iQvv~~~~~~~~~~~~~~~~~--~l~~esiV~V~G~v~~~~~~  175 (435)
                      +.+.|++|+|+|||+++|.+| +++|++|||+++  .||||+..+.     ..++.+.  .|+.||+|.|+|+|+.++  
T Consensus       103 ~~~~g~~V~v~GwV~~iR~~g-~~~Fi~l~Dgs~~~~lQ~v~~~~~-----~~~~~l~~~~l~~gs~V~V~G~v~~~~--  174 (565)
T PLN02603        103 LARVGKTLNVMGWVRTLRAQS-SVTFIEVNDGSCLSNMQCVMTPDA-----EGYDQVESGLITTGASVLVQGTVVSSQ--  174 (565)
T ss_pred             cccCCCEEEEEEEEEEEEeCC-CeEEEEEECCCCCEeEEEEEECcH-----HHHHHHhhcCCCCCCEEEEEEEEEecC--
Confidence            367799999999999999998 899999999885  6999997532     1233333  499999999999998753  


Q ss_pred             CCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHH
Q 013856          176 IKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQV  254 (435)
Q Consensus       176 ~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i  254 (435)
                        ++.+.+||++++|.+|++| .++|++.++                    .+.+.+..++|||+|++.++++||+||.|
T Consensus       175 --~~~~~~EL~v~~i~vlg~a~~~~Pi~~~~--------------------~s~e~lr~~~hLr~Rt~~~~ai~RiRS~i  232 (565)
T PLN02603        175 --GGKQKVELKVSKIVVVGKSDPSYPIQKKR--------------------VSREFLRTKAHLRPRTNTFGAVARVRNAL  232 (565)
T ss_pred             --CCCccEEEEEeEEEEEECCCCCCCCcccc--------------------cchhhhhhhhhhhhccHHHHHHHHHHHHH
Confidence              3346799999999999999 889987544                    23466778999999999999999999999


Q ss_pred             HHHHHHHhhcCCeeeecCceeeecCCCCCcceeee------------------------------ccCCCceeeccChHH
Q 013856          255 GNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL------------------------------DYKGQSACLAQSPQL  304 (435)
Q Consensus       255 ~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~------------------------------~~~~~~~~L~~Spql  304 (435)
                      +.++|+||.++||+|||||+|++++|||+++.|.|                              +|||+++||+|||||
T Consensus       233 ~~air~ff~~~gF~eV~TPiLt~s~~EGA~e~F~Vttl~~~~~~~~~~~~~~lp~~~~~~~~~~~dyF~~~~~LtvS~QL  312 (565)
T PLN02603        233 AYATHKFFQENGFVWVSSPIITASDCEGAGEQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWSQDFFGKPAFLTVSGQL  312 (565)
T ss_pred             HHHHHHHHHHCCCEEEECCeecccCCCccccCceeeeccccccccccccccccccCcccccccchhhhCcceeeccCchH
Confidence            99999999999999999999999999999998854                              689999999999999


Q ss_pred             HHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcC
Q 013856          305 HKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY  384 (435)
Q Consensus       305 ~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~  384 (435)
                      |||++ ++||+|||+||||||||+|+|+|||+||||||+||+|++ ++|+|+++|++|+++++.+.++|..+|+.++..+
T Consensus       313 ~~E~~-~~~l~rVy~igp~FRaE~s~T~RHL~EF~mlE~E~af~d-l~d~m~~~E~~l~~~~~~v~~~~~~el~~~~~~~  390 (565)
T PLN02603        313 NGETY-ATALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFAD-LNDDMACATAYLQYVVKYILENCKEDMEFFNTWI  390 (565)
T ss_pred             HHHHH-HhcccceEEEecceeCCCCCCccccccceeeeeeeecCC-HHHHHHHHHHHHHHHHHHHHcccHhHHHhcCCcc
Confidence            99975 578999999999999999999999999999999999996 9999999999999999999999999998876544


Q ss_pred             CCcccc-----CCCCCccccHHHHHHHHHHcC----CCCCCCCCCCcHHHHHHHHHH
Q 013856          385 PFEPLK-----YKPKTLRLTFEEGVQMLKDAG----VEIDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       385 ~~~~~~-----~~~p~~rit~~eai~ll~~~g----~~~~~~~dl~te~E~~L~~~v  432 (435)
                      +...++     ...||+||||.||+++|++.+    ..+.|++||++++|++|++.+
T Consensus       391 ~~~~~~~l~~~~~~~f~rity~EAi~iL~~~~~~~~~~~~~g~dl~~e~Er~L~~~~  447 (565)
T PLN02603        391 EKGIIDRLSDVVEKNFVQLSYTDAIELLLKAKKKFEFPVKWGLDLQSEHERYITEEA  447 (565)
T ss_pred             cccHHHHHHHhcCCCCCCCCHHHHHHHHHHhccccCCCCCccccccHHHHHHHHHHh
Confidence            322111     235899999999999999874    346789999999999999865

>PTZ00425 asparagine-tRNA ligase; Provisional

Probab=100.00  E-value=4.7e-65  Score=538.97  Aligned_cols=305  Identities=21%  Similarity=0.319  Sum_probs=260.5

Q ss_pred             CCCCCEEEEEEEEeeeccCCC-ceEEEEEEeCCe--EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc--
Q 013856          101 SLKDQEVLIRGRVHTTRPVGN-KLAFVVVRERVS--TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE--  175 (435)
Q Consensus       101 ~~~g~~V~v~GrV~~~R~~G~-kl~Fl~Lrd~~~--~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~--  175 (435)
                      .+.|++|+|+|||+++|.+|+ +++|++|||+++  .||||+...     ...+..+.+|+.||+|.|+|+|...+..  
T Consensus        78 ~~~g~~Vtl~GWv~~iR~~g~~~~~Fv~lrDgsg~~~iQiVv~~~-----~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~  152 (586)
T PTZ00425         78 KYIDQIITVCGWSKAVRKQGGGRFCFVNLNDGSCHLNLQIIVDQS-----IENYEKLLKCGVGCCFRFTGKLIISPVQNE  152 (586)
T ss_pred             ccCCCEEEEEEEEeehhhcCCceEEEEEEECCCCCcceEEEECCc-----hHHHHHHhcCCCccEEEEEEEEEcCCcccc
Confidence            467999999999999999985 599999999987  699998643     1234456789999999999999754322  


Q ss_pred             -CCC-CceeEEEEE-----eEEEEeecC-C--CCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhh
Q 013856          176 -IKG-ATQQVEVQI-----KKLYCVSRA-A--KTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQ  245 (435)
Q Consensus       176 -~~~-~t~~lEI~v-----~~i~vls~~-~--~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~  245 (435)
                       ..+ .++.+||++     +++.||+++ .  ++|++.+.                    .+.|+++++||||+|++..+
T Consensus       153 n~~g~~~~~~El~~~~~~~~~~~ilg~~~d~~~yPi~~k~--------------------~~~e~lr~~rhL~lR~~~~~  212 (586)
T PTZ00425        153 NKKGLLKENVELALKDNSIHNFEIYGENLDPQKYPLSKKN--------------------HGKEFLREVAHLRPRSYFIS  212 (586)
T ss_pred             CcCCCCCccEEEEEecCCCceEEEEeccCCCCCCCCCCcc--------------------CChhhhhhccceeccCHHHH
Confidence             111 246799998     799999988 4  56665332                    35788999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee------------------------------------
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL------------------------------------  289 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~------------------------------------  289 (435)
                      ++||+||.|..++|+||.++||+||+||+|++++||||++.|.|                                    
T Consensus       213 avlRiRs~l~~a~r~ff~~~gF~eI~TPiit~s~~EGa~elF~V~t~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~  292 (586)
T PTZ00425        213 SVIRIRNALAIATHLFFQSRGFLYIHTPLITTSDCEGGGEMFTVTTLLGEDADYRAIPRVNKKNKKGEKREDILNTCNAN  292 (586)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEeeCCeecccCCCCCcceEEeeecccccccccccccccccccccccccccccccccc
Confidence            99999999999999999999999999999999999999999987                                    


Q ss_pred             ---------------------------ccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhhe
Q 013856          290 ---------------------------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD  342 (435)
Q Consensus       290 ---------------------------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE  342 (435)
                                                 +|||+++||+||||||||++ ++|++|||+||||||||+++|+|||+||||||
T Consensus       293 ~~~~~~~~~~~~~~~q~~~~~~~~~~~~yF~k~ayL~~S~QLylE~~-~~g~~rVf~i~p~FRaE~s~t~RHL~EFt~lE  371 (586)
T PTZ00425        293 NNNGNSSSSNAVSSPAYPDQYLIDYKKDFFSKQAFLTVSGQLSLENL-CSSMGDVYTFGPTFRAENSHTSRHLAEFWMIE  371 (586)
T ss_pred             ccccccccccccccccccccccccccccccCcceEEEcCchHHHHHH-HhccCCEEEEeceEeCCCCCCCCCCcccceEE
Confidence                                       69999999999999999976 57899999999999999999999999999999


Q ss_pred             eeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccc-----cCCCCCccccHHHHHHHHHHcC----CC
Q 013856          343 VEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPL-----KYKPKTLRLTFEEGVQMLKDAG----VE  413 (435)
Q Consensus       343 ~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~-----~~~~p~~rit~~eai~ll~~~g----~~  413 (435)
                      +||+|++ ++|+|+++|+||+++++.+.++|..+|..++.......+     .+..||+||||.||+++|++.|    .+
T Consensus       372 ~E~af~d-~~d~m~~~E~li~~v~~~vl~~~~~~i~~~~~~~~~~l~~~l~~~~~~pf~rIty~EAi~iL~~~~~~~~~~  450 (586)
T PTZ00425        372 PEIAFAD-LYDNMELAESYIKYCIGYVLNNNFDDIYYFEENVETGLISRLKNILDEDFAKITYTNVIDLLQPYSDSFEVP  450 (586)
T ss_pred             EEEecCC-HHHHHHHHHHHHHHHHHHHhcccccccccccccccccHHHHHHHhcCCCCCcCCHHHHHHHHHHhHHhcCCC
Confidence            9999996 999999999999999999998888887765432211111     1235899999999999998864    46


Q ss_pred             CCCCCCCCcHHHHHHHHHH
Q 013856          414 IDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       414 ~~~~~dl~te~E~~L~~~v  432 (435)
                      ++|++||++++|++|++.+
T Consensus       451 ~~~G~dL~~e~Er~L~~~~  469 (586)
T PTZ00425        451 VKWGMDLQSEHERFVAEQI  469 (586)
T ss_pred             CCcccccchHHHHHHHHHh
Confidence            7899999999999999985

>PLN02532 asparagine-tRNA synthetase

Probab=100.00  E-value=5.4e-65  Score=540.97  Aligned_cols=284  Identities=19%  Similarity=0.310  Sum_probs=246.4

Q ss_pred             ccCCCceEEEEEEeCCeE--EEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEee
Q 013856          117 RPVGNKLAFVVVRERVST--VQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVS  194 (435)
Q Consensus       117 R~~G~kl~Fl~Lrd~~~~--iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls  194 (435)
                      |.+| +++||+|||+++.  ||||+....  ..     ....|+.|++|.|+|+|+....+  ..+|.+||.+++|.||+
T Consensus       130 r~~g-~i~FI~LrDGSg~~~lQvVv~~~~--~~-----~~~~L~~Es~V~V~G~V~~~~~~--~~~g~iEl~v~~i~VLg  199 (633)
T PLN02532        130 PPPP-SVAYLLISDGSCVASLQVVVDSAL--AP-----LTQLMATGTCILAEGVLKLPLPA--QGKHVIELEVEKILHIG  199 (633)
T ss_pred             ccCC-CcEEEEEECCCCccceEEEEeCCc--cc-----HhhcCCCceEEEEEEEEEecCCC--CCCCcEEEEeeEEEEEe
Confidence            6677 8999999999987  999997542  11     12689999999999999875322  34578999999999999


Q ss_pred             cC--CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecC
Q 013856          195 RA--AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT  272 (435)
Q Consensus       195 ~~--~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~T  272 (435)
                      ++  .++|++.+.                    .+.|+++++||||||++..+++||+||.|+++||+||.++||+||+|
T Consensus       200 ~a~~~p~Pi~~k~--------------------~~~E~LR~~RhLdLRt~~~~ailRiRS~i~~aiR~ff~~~GFiEV~T  259 (633)
T PLN02532        200 TVDPEKYPLSKKR--------------------LPLDMLRDFSHFRPRTTTVASVTRVRSALTHATHTFFQDHGFLYVQV  259 (633)
T ss_pred             cCCCCCCcccccc--------------------CCHHHHhhCcceecCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeC
Confidence            87  468876432                    25678889999999999999999999999999999999999999999


Q ss_pred             ceeeecCCCCCcce------------------------------------------------------------------
Q 013856          273 PKLIAGSSEGGSAV------------------------------------------------------------------  286 (435)
Q Consensus       273 P~l~~~~~egga~~------------------------------------------------------------------  286 (435)
                      |+|++++||||++.                                                                  
T Consensus       260 PiLT~s~~EGa~elF~v~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  339 (633)
T PLN02532        260 PIITTTDATGFGEMFRVTTLLGKSDDKEEKKPVHETEGISLEAVKAAIKEKTNLVEELKRSESNREALVAAEQDLRKTNQ  339 (633)
T ss_pred             CeecccCCCccccccceeccccccccccccccccccccccchhhhhhhhccccccccccccccccccccccccccccccc
Confidence            99999999999976                                                                  


Q ss_pred             -----------------------eeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhhee
Q 013856          287 -----------------------FRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV  343 (435)
Q Consensus       287 -----------------------F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~  343 (435)
                                             |.++|||+++||+||||||||+++ +||+|||+|||+||||+++|+||||||||||+
T Consensus       340 ~~~~~~~~~~~~~~~~~~~~~~~f~~dyFg~~ayLtqS~QLylE~~~-~gl~rVYeIgP~FRAE~s~T~RHL~EFtmlE~  418 (633)
T PLN02532        340 LASQLEAKEKLKTGTSVKADKLSFSKDFFSRPTYLTVSGRLHLESYA-CALGNVYTFGPRFRADRIDSARHLAEMWMVEV  418 (633)
T ss_pred             ccccccccccccccccccccccccccccCCCCeeeccCHHHHHHHHH-HhcCceEEEccceecCCCCCCcccccccceee
Confidence                                   566799999999999999999865 58999999999999999999999999999999


Q ss_pred             eecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcc-----ccCCCCCccccHHHHHHHHHHcC-----CC
Q 013856          344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP-----LKYKPKTLRLTFEEGVQMLKDAG-----VE  413 (435)
Q Consensus       344 e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~-----~~~~~p~~rit~~eai~ll~~~g-----~~  413 (435)
                      ||+|.+ |+|+|+++|+||+++++.+.++|..+|+.++..+....     ..+..||+||||.||+++|++.+     .+
T Consensus       419 Emaf~d-~~dvM~l~E~lI~~v~k~v~~~~~~el~~l~~~~~~~~~~~le~~~~~pf~RIty~EAi~iL~~~~~~~~e~~  497 (633)
T PLN02532        419 EMAFSE-LEDAMNCAEDYFKFLCKWVLENCSEDMKFVSKRIDKTISTRLEAIISSSLQRISYTEAVDLLKQATDKKFETK  497 (633)
T ss_pred             eehhcC-HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccCCcchhhhhhcccCCCceEEEHHHHHHHHHHhcCCCcccc
Confidence            999996 99999999999999999999999999988765443211     13446999999999999998874     23


Q ss_pred             CCCCCCCCcHHHHHHHHHH
Q 013856          414 IDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       414 ~~~~~dl~te~E~~L~~~v  432 (435)
                      ++|++||++++|++|++.+
T Consensus       498 ~~~g~dL~~e~Er~L~~~~  516 (633)
T PLN02532        498 PEWGIALTTEHLSYLADEI  516 (633)
T ss_pred             cccCCccChHHHHHHHHHH
Confidence            6799999999999999873

>PTZ00385 lysyl-tRNA synthetase; Provisional

Probab=100.00  E-value=8.5e-65  Score=541.48  Aligned_cols=323  Identities=21%  Similarity=0.296  Sum_probs=257.5

Q ss_pred             CCccccccCcce-eEeccc--cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hc
Q 013856           81 GKWSEAVSGREW-TEVGAL--NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RS  156 (435)
Q Consensus        81 ~~~~~~~~~~~~-~~i~~l--~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~  156 (435)
                      |+|+++++..++ ..+.++  ++...++.|+|+|||+++|.+| |++|++|||++++||||+..+.. ++++++++. ..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~vaGrV~~~R~~G-k~~F~~LrD~~G~IQvv~~~~~~-~~~~~~~~~~~~  158 (659)
T PTZ00385         81 SSFRGITPISEVRERYGYLASGDRAAQATVRVAGRVTSVRDIG-KIIFVTIRSNGNELQVVGQVGEH-FTREDLKKLKVS  158 (659)
T ss_pred             ccCcccccHHHHHHHhhccccccccCCCEEEEEEEEEeeeccC-CeEEEEEEECCceEEEEEECCcc-CCHHHHHHHHhC
Confidence            466766665432 122332  2223366799999999999999 79999999999999999986431 356677666 57


Q ss_pred             CCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC--CCCCcccccccchHHHHHhhhhcCCCCCCCCccccccc
Q 013856          157 LSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA--AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNN  234 (435)
Q Consensus       157 l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~--~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~  234 (435)
                      |+.||+|.|+|+|.+.      .+|++||++++|.+||++  ..+|.....              ....+..+.++||||
T Consensus       159 l~~gdiV~V~G~v~~t------~~GeleI~~~~i~lLska~~~~~~~~p~~--------------~k~~~~~d~e~R~r~  218 (659)
T PTZ00385        159 LRVGDIIGADGVPCRM------QRGELSVAASRMLILSPYVCTDQVVCPNL--------------RGFTVLQDNDVKYRY  218 (659)
T ss_pred             CCCCCEEEEEEEEEec------CCceEEEEeeEEEEechhhhccccCCCCC--------------ccccccCChhhhccc
Confidence            9999999999999753      358999999999999994  222221100              002345789999999


Q ss_pred             ceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhcc
Q 013856          235 RVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSIC  311 (435)
Q Consensus       235 R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~  311 (435)
                      ||||||+ +.++++|++||.|+++||+||.++||+||+||+|+++++++|+.+|.+  ++|+.++||+||||||||+|++
T Consensus       219 RyLDL~~n~~~~~ifr~Rs~I~~aiR~ff~~~gFlEVeTPiL~~~~~ga~a~pF~t~~n~~~~~~yL~~SPELylKrLiv  298 (659)
T PTZ00385        219 RFTDMMTNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTHHNANAMDLFLRVAPELHLKQCIV  298 (659)
T ss_pred             ceeeeecCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCEeeccCCCCCccceEeecccCCCCEEecCChHHHHHHHhh
Confidence            9999975 889999999999999999999999999999999998888889999998  4589999999999999999999


Q ss_pred             CCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhc--CCCccc
Q 013856          312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQ--YPFEPL  389 (435)
Q Consensus       312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~--~~~~~~  389 (435)
                      ||++||||||||||||++ +.||||||||||||++|++ |+|+|+++|+||++++..+.+...  +......  .....+
T Consensus       299 gG~erVyeIg~~FRnE~~-~~rH~pEFTmlE~y~a~~d-~~d~m~l~E~li~~~~~~v~g~~~--~~~~~~~~~g~~~~i  374 (659)
T PTZ00385        299 GGMERIYEIGKVFRNEDA-DRSHNPEFTSCEFYAAYHT-YEDLMPMTEDIFRQLAMRVNGTTV--VQIYPENAHGNPVTV  374 (659)
T ss_pred             cccCCEEEEeceecCCCC-CCCccccccceeeeeecCC-HHHHHHHHHHHHHHHHHHhcCCee--EEeeccccCCCcccc
Confidence            999999999999999998 5899999999999999996 999999999999999999876431  1110000  000135


Q ss_pred             cCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHH
Q 013856          390 KYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQL  431 (435)
Q Consensus       390 ~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~  431 (435)
                      ++.+||+||||.+++.  +..|+++++++|+++++|..++..
T Consensus       375 ~~~~Pf~Rit~~d~~~--e~~G~d~~~~~dl~~~~e~~~~~~  414 (659)
T PTZ00385        375 DLGKPFRRVSVYDEIQ--RMSGVEFPPPNELNTPKGIAYMSV  414 (659)
T ss_pred             cCCCCceEEeHHHHHH--HHhCCCCCccccCCCHHHHHHHHH
Confidence            7778999999777664  557999888889999888755443

>PRK02983 lysS lysyl-tRNA synthetase; Provisional

Probab=100.00  E-value=4.9e-64  Score=566.86  Aligned_cols=300  Identities=20%  Similarity=0.249  Sum_probs=251.3

Q ss_pred             CCCCCCCccccccCcceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh
Q 013856           76 NDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR  155 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~  155 (435)
                      .|||||+|+++++.      +++.+...|++|+|+|||+++|.+| |++|++|||++++||||++.+.. .+..+..|..
T Consensus       629 ~~pyp~~~~~~~~~------~~~~~~~~~~~V~v~Grv~~~R~~G-~~~F~~lrD~~g~iQ~v~~~~~~-~~~~~~~~~~  700 (1094)
T PRK02983        629 VDPYPVGVPPTHTV------AEALDAPTGEEVSVSGRVLRIRDYG-GVLFADLRDWSGELQVLLDASRL-EQGSLADFRA  700 (1094)
T ss_pred             CCCCCCCCcCccCH------HHHHHhcCCCEEEEEEEEEEEeeCC-CeEEEEEEeCCeeEEEEEECCcc-chhhHHHHHh
Confidence            59999999987653      4454457789999999999999999 89999999999999999986532 1234555667


Q ss_pred             cCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCccccccc
Q 013856          156 SLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNN  234 (435)
Q Consensus       156 ~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~  234 (435)
                      .|+.||+|.|+|++.++.      +|++||++++|.++++| .+||....                   +..+.++|+|+
T Consensus       701 ~l~~gd~V~v~G~v~~t~------~ge~ei~~~~i~ll~k~~~plP~k~~-------------------~~~d~e~R~r~  755 (1094)
T PRK02983        701 AVDLGDLVEVTGTMGTSR------NGTLSLLVTSWRLAGKCLRPLPDKWK-------------------GLTDPEARVRQ  755 (1094)
T ss_pred             cCCCCCEEEEEEEEEEcC------CCCEEEEEeEEEEEeccCcCCCCccc-------------------cCCChhhcchh
Confidence            899999999999998643      47899999999999999 89997532                   34788999999


Q ss_pred             ceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhcc
Q 013856          235 RVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSIC  311 (435)
Q Consensus       235 R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~  311 (435)
                      ||||||+ +.++++|++||.|+++||+||.++||+||+||+|++..+++++++|.+  +|||+++||+||||||||++++
T Consensus       756 R~lDL~~n~~~~~~~r~Rs~i~~~iR~fl~~~gFlEVeTPiL~~~~gGa~a~pF~t~~~~~~~~~yLriSPELylKrLiv  835 (1094)
T PRK02983        756 RYLDLAVNPEARDLLRARSAVVRAVRETLVARGFLEVETPILQQVHGGANARPFVTHINAYDMDLYLRIAPELYLKRLCV  835 (1094)
T ss_pred             hhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCEeeccCCCcccceeEeeecCCCccchhhcChHHHHHHHHh
Confidence            9999976 899999999999999999999999999999999986555445678954  7999999999999999999999


Q ss_pred             CCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccC
Q 013856          312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY  391 (435)
Q Consensus       312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~  391 (435)
                      ||++||||||||||||++ +.||||||||||+||+|.| |+|+|+++|+||+++++.+.+...  +..-+.......+++
T Consensus       836 gG~erVFEIg~~FRnE~~-~~rHnpEFTmLE~y~a~~d-y~d~m~l~E~li~~i~~~v~~~~~--~~~~~~~~~~~~i~~  911 (1094)
T PRK02983        836 GGVERVFELGRNFRNEGV-DATHNPEFTLLEAYQAHAD-YDTMRDLTRELIQNAAQAAHGAPV--VMRPDGDGVLEPVDI  911 (1094)
T ss_pred             cccCceEEEcceecCCCC-CCCccccccchhhhhhcCC-HHHHHHHHHHHHHHHHHHHhCCcE--EeeCCcccccccccc
Confidence            999999999999999998 4699999999999999986 999999999999999999865421  000000111224667


Q ss_pred             CCCCccccHHHHHHHHHHcCCCC
Q 013856          392 KPKTLRLTFEEGVQMLKDAGVEI  414 (435)
Q Consensus       392 ~~p~~rit~~eai~ll~~~g~~~  414 (435)
                      ..||+||||.||++  +..|+++
T Consensus       912 ~~pf~rit~~eai~--~~~g~~~  932 (1094)
T PRK02983        912 SGPWPVVTVHDAVS--EALGEEI  932 (1094)
T ss_pred             CCCceEEEHHHHHH--HHhCCCC
Confidence            78999999999997  4455543

>PLN02903 aminoacyl-tRNA ligase

Probab=100.00  E-value=9.3e-63  Score=526.07  Aligned_cols=283  Identities=28%  Similarity=0.400  Sum_probs=243.2

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      .+.|++|...+.|++|+|+|||+++|.+| +++|++|||+++.+|||++.+.   ++++++++..|+.||+|.|+|+|..
T Consensus        60 t~~cg~l~~~~~gk~V~l~GWV~~~R~~G-~l~FidLRD~~G~iQvV~~~~~---~~~~~~~~~~L~~esvV~V~G~V~~  135 (652)
T PLN02903         60 SHLCGALSVNDVGSRVTLCGWVDLHRDMG-GLTFLDVRDHTGIVQVVTLPDE---FPEAHRTANRLRNEYVVAVEGTVRS  135 (652)
T ss_pred             CCchhhcchhhCCCEEEEEEEEEEEecCC-CcEEEEEEcCCccEEEEEeCCc---cHHHHHHHhcCCCCCEEEEEEEEEe
Confidence            35789999999999999999999999999 8999999999999999997542   4567888999999999999999986


Q ss_pred             CC-ccC--CCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhH
Q 013856          172 PD-VEI--KGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGI  247 (435)
Q Consensus       172 ~~-~~~--~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i  247 (435)
                      ++ .++  +..+|++||++++|+||++| .+||+.+.+...             ....++.++|++|||||||++.++++
T Consensus       136 r~~~~~n~~~~tGeiEl~~~~i~VL~~a~~~lPf~i~~~~~-------------~~~~~~ee~Rl~~RyLDLR~~~~q~~  202 (652)
T PLN02903        136 RPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVTTADE-------------QKDSIKEEVRLRYRVLDLRRPQMNAN  202 (652)
T ss_pred             CCCcCcCCCCCCCCEEEEEeEEEEEecCCCCCCcccccccc-------------ccccCChhhhhccceeecCCHHHHHH
Confidence            42 222  33458899999999999999 889998764311             01126789999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhc-CCeeeecCceeeecCCCCCcceeeeccC--CCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856          248 FRIQSQVGNIFRQFLLS-ENFVEIHTPKLIAGSSEGGSAVFRLDYK--GQSACLAQSPQLHKQMSICGDFGRVFETGPVF  324 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~-~gF~EV~TP~l~~~~~egga~~F~~~~~--~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F  324 (435)
                      |++||.|++++|+||.+ +||+||+||+|+++++||+.+.|...++  |..+||+||||||||++|++|++|||||||||
T Consensus       203 lr~Rs~i~~~iR~fl~~~~gFiEVeTPiL~~st~eGardf~v~~~~~~g~~y~L~qSPQlykQ~Lm~~G~~RvFqIa~~F  282 (652)
T PLN02903        203 LRLRHRVVKLIRRYLEDVHGFVEIETPILSRSTPEGARDYLVPSRVQPGTFYALPQSPQLFKQMLMVSGFDRYYQIARCF  282 (652)
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEECCeeccCCCCCCcccEEeeecCCCcccccCCCHHHHHHHHHhccCCcEEEEehhh
Confidence            99999999999999997 9999999999999888876654444443  56778999999999999999999999999999


Q ss_pred             ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHH
Q 013856          325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV  404 (435)
Q Consensus       325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai  404 (435)
                      |||++++.|| ||||||||||+|++ |+|+|+++|+||+++++.+.+                 +++..||+||||.||+
T Consensus       283 R~E~~~t~Rh-pEFTqLE~E~sf~d-~~dvm~~~E~li~~v~~~~~~-----------------~~~~~PF~rity~eA~  343 (652)
T PLN02903        283 RDEDLRADRQ-PEFTQLDMELAFTP-LEDMLKLNEDLIRQVFKEIKG-----------------VQLPNPFPRLTYAEAM  343 (652)
T ss_pred             ccCCCCCCcc-cceeeeeeeecCCC-HHHHHHHHHHHHHHHHHHHhC-----------------CCCCCCceEEEHHHHH
Confidence            9999999888 99999999999996 999999999999999987652                 1233699999999999


Q ss_pred             HHHHHcCCC
Q 013856          405 QMLKDAGVE  413 (435)
Q Consensus       405 ~ll~~~g~~  413 (435)
                      +   ..|.+
T Consensus       344 ~---~ygsD  349 (652)
T PLN02903        344 S---KYGSD  349 (652)
T ss_pred             H---HHcCC
Confidence            6   45544

>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial type

Probab=100.00  E-value=7.2e-62  Score=517.01  Aligned_cols=269  Identities=27%  Similarity=0.451  Sum_probs=235.0

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|+++...+.|++|+|+|||+++|.+| +++|++|||+++.||||++.+     .++++++..|+.||+|.|+|+|...
T Consensus         4 ~~~~~l~~~~~g~~V~l~GwV~~~R~~G-kl~Fi~LrD~sg~iQvv~~~~-----~~~~~~~~~L~~esvV~V~G~v~~r   77 (583)
T TIGR00459         4 HYCGQLRTEHLGQTVTLAGWVNRRRDLG-GLIFIDLRDRSGIVQVVCDPD-----ADALKLAKGLRNEDVVQVKGKVSAR   77 (583)
T ss_pred             eeHhhcchhhCCCEEEEEEEEEEEEcCC-CcEEEEEEeCCccEEEEEeCC-----HHHHHHHhcCCCCCEEEEEEEEEeC
Confidence            4577887788999999999999999999 799999999999999999753     4567888999999999999999753


Q ss_pred             C-ccCC--CCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          173 D-VEIK--GATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       173 ~-~~~~--~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      + .++.  .++|++||.++++.+|++|..+|+.+.+.                  ..+.++|+++||||||++.++++|+
T Consensus        78 ~~~~~n~~~~tg~iEl~~~~i~iL~~a~~~P~~~~~~------------------~~~~~~Rl~~RyLDLR~~~~~~~lr  139 (583)
T TIGR00459        78 PEGNINRNLDTGEIEILAESITLLNKSKTPPLIIEKT------------------DAEEEVRLKYRYLDLRRPEMQQRLK  139 (583)
T ss_pred             CccccCccCCCCcEEEEEeEEEEeecCCCCCCccccc------------------ccchhhhcccceEEcCCHHHHHHHH
Confidence            2 2222  45689999999999999996678765421                  2567999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeecc--CCCce-eeccChHHHHhhhccCCCceeEEEecceec
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSA-CLAQSPQLHKQMSICGDFGRVFETGPVFRA  326 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~--~~~~~-~L~~Spql~lq~li~~g~~rVfeIgp~FR~  326 (435)
                      +||.|+++||+||.++||+||+||+|+++++||+ .+|.+.+  ++..+ +|+||||||||+|+++|++|||||||||||
T Consensus       140 ~Rs~i~~~iR~ff~~~gFiEVeTP~L~~s~~eGa-r~f~vp~~~~~~~~y~L~qSpQlykq~l~v~G~ervfqI~~~FR~  218 (583)
T TIGR00459       140 LRHKVTKAVRNFLDQQGFLEIETPMLTKSTPEGA-RDYLVPSRVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCFRD  218 (583)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCeeccCCCCCC-cceeeeeecCCCceeecCCCHHHHHHHHHhcccCcEEEEcceeeC
Confidence            9999999999999999999999999998878865 4576654  35554 599999999999999999999999999999


Q ss_pred             CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856          327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ  405 (435)
Q Consensus       327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~  405 (435)
                      |++++.|| ||||||||||+|++ |+|+|+++|+||+++++.+.+                 +++..||+||||.||+.
T Consensus       219 E~~~t~r~-pEFT~le~E~af~d-~~dvm~~~E~li~~v~~~v~~-----------------~~~~~pf~r~ty~ea~~  278 (583)
T TIGR00459       219 EDLRADRQ-PEFTQIDMEMSFMT-QEDVMELIEKLVSHVFLEVKG-----------------IDLKKPFPVMTYAEAME  278 (583)
T ss_pred             CCCCCCCC-cccCcceeeecCCC-HHHHHHHHHHHHHHHHHHHhC-----------------CCCCCCceEEEHHHHHH
Confidence            99989888 99999999999996 999999999999999998763                 23457999999999996

In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.

>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.6e-63  Score=505.87  Aligned_cols=297  Identities=24%  Similarity=0.364  Sum_probs=254.4

Q ss_pred             CCCCCCCccccccCcc----eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856           76 NDPQTGKWSEAVSGRE----WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV  151 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~----~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~  151 (435)
                      .||||+.|+.+++..+    |.....-........|+|+|||.++|.+| |++|++|.|++++||++++++.  +..+.+
T Consensus        29 ~~~yp~~~~~~~~~~~l~~~~~~~~~~el~~~~~~v~vAGRi~~~R~~G-K~~F~~i~d~~gkiQ~yi~k~~--~~~~~~  105 (502)
T COG1190          29 IDPYPNDFERTHTSADLREKYADKTKEELEALNIEVSVAGRIMTIRNMG-KASFADLQDGSGKIQLYVNKDE--VGEEVF  105 (502)
T ss_pred             CCCCCCcCcccccHHHHHHHHhccchhhhhhccceeEEecceeeecccC-ceeEEEEecCCceEEEEEeccc--cchhhH
Confidence            6899999999876543    33222100112233499999999999999 9999999999999999999753  445555


Q ss_pred             H-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcc
Q 013856          152 R-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQD  229 (435)
Q Consensus       152 ~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e  229 (435)
                      + +.+.+..||||+|+|.+.+      +.+|+++|+++++.+|++| .+||..                   .+++.|+|
T Consensus       106 ~~~~~~~dlGDiigv~G~~~~------T~~GelSv~v~~~~lLsKsL~pLPeK-------------------~hgL~D~E  160 (502)
T COG1190         106 EALFKKLDLGDIIGVEGPLFK------TKTGELSVSVEELRLLSKSLRPLPEK-------------------FHGLTDKE  160 (502)
T ss_pred             HHHHhccccCCEEeeeeeeee------cCCCceEEEEEEEeeecccCCCCChh-------------------hcCCccHH
Confidence            5 6778999999999999876      3468999999999999999 999965                   34568999


Q ss_pred             cccccceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--eeee--ccCCCceeeccChHH
Q 013856          230 TRLNNRVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--VFRL--DYKGQSACLAQSPQL  304 (435)
Q Consensus       230 ~rl~~R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--~F~~--~~~~~~~~L~~Spql  304 (435)
                      +|+|+|||||.. +..+.+|..||+|+++||+||+++||+||+||+|+.  ..|||+  ||.+  |.++.++|||+||+|
T Consensus       161 ~RyR~RylDLi~N~e~r~~f~~Rs~ii~~iR~fl~~~gFlEVETP~lq~--i~GGA~ArPF~ThhNald~dlyLRIApEL  238 (502)
T COG1190         161 IRYRQRYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQP--IPGGAAARPFITHHNALDMDLYLRIAPEL  238 (502)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCeEeccccccc--cCCCcccccceeeecccCCceEEeeccHH
Confidence            999999999998 789999999999999999999999999999999985  456655  9998  569999999999999


Q ss_pred             HHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcC
Q 013856          305 HKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY  384 (435)
Q Consensus       305 ~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~  384 (435)
                      |||+||+|||+||||||++||||+. +.||||||||||+|+||+| |+|+|+++|+||+++++.+.+...       -.|
T Consensus       239 yLKRliVGG~erVfEIgr~FRNEGi-d~tHNPEFTmlE~Y~AYaD-y~D~m~ltE~Li~~~a~~v~gt~~-------v~y  309 (502)
T COG1190         239 YLKRLIVGGFERVFEIGRNFRNEGI-DTTHNPEFTMLEFYQAYAD-YEDLMDLTEELIKELAKEVNGTTK-------VTY  309 (502)
T ss_pred             HHHHHHhcCchhheeeccccccCCC-ccccCcchhhHHHHHHHhH-HHHHHHHHHHHHHHHHHHhcCCeE-------EEE
Confidence            9999999999999999999999996 8999999999999999997 999999999999999999875321       235


Q ss_pred             CCccccCCCCCccccHHHHHHHHHHcCCC
Q 013856          385 PFEPLKYKPKTLRLTFEEGVQMLKDAGVE  413 (435)
Q Consensus       385 ~~~~~~~~~p~~rit~~eai~ll~~~g~~  413 (435)
                      +...++|.+||.|++|.||+.  ...|+.
T Consensus       310 ~~~~id~~~pf~ri~m~dal~--e~~g~~  336 (502)
T COG1190         310 GGQEIDFSKPFKRITMVDALK--EYLGVD  336 (502)
T ss_pred             CCEeEecCCCeeeeehHHHHH--HHhCcc
Confidence            566789999999999999996  667765

>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional

Probab=100.00  E-value=3.4e-61  Score=518.46  Aligned_cols=286  Identities=27%  Similarity=0.360  Sum_probs=238.4

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|.+.+.|++|+|+|||+++|.+| +++|++|||+++.||||++.+.  ++.++++++..|+.||+|.|+|+|..+
T Consensus         7 ~~cg~l~~~~~g~~V~l~GWV~~~R~~G-~l~FidLRD~~G~iQvV~~~~~--~~~~~~~~~~~L~~EsvV~V~G~v~~r   83 (706)
T PRK12820          7 SFCGHLSLDDTGREVCLAGWVDAFRDHG-ELLFIHLRDRNGFIQAVFSPEA--APADVYELAASLRAEFCVALQGEVQKR   83 (706)
T ss_pred             cccccCChhhCCCEEEEEEEEEEEEcCC-CcEEEEEEeCCccEEEEEeCCc--CCHHHHHHHhcCCCCCEEEEEeEEecc
Confidence            5789999999999999999999999999 8999999999999999998542  467788999999999999999999874


Q ss_pred             CccC---CCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          173 DVEI---KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       173 ~~~~---~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      +...   +..+|++||++++|.||++|..+|+.+.+...+..      ..+..+..++.++|++|||||||++..+++|+
T Consensus        84 ~~~~~n~~~~tg~iEl~~~~i~iL~~a~~lP~~i~~~~~~~~------~~~~~~~~~~e~~Rl~~RyLDLR~~~~~~~lr  157 (706)
T PRK12820         84 LEETENPHIETGDIEVFVRELSILAASEALPFAISDKAMTAG------AGSAGADAVNEDLRLQYRYLDIRRPAMQDHLA  157 (706)
T ss_pred             CccccCCCCCCCcEEEEeeEEEEEecCCCCCCCCcccccccc------cccccccccCHhhhhhCceeecCCHHHHHHHH
Confidence            3221   22358899999999999999667876654211000      00011223678999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcce-eeeccCCCce-eeccChHHHHhhhccCCCceeEEEecceecC
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAV-FRLDYKGQSA-CLAQSPQLHKQMSICGDFGRVFETGPVFRAE  327 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~-F~~~~~~~~~-~L~~Spql~lq~li~~g~~rVfeIgp~FR~E  327 (435)
                      +||.|+++||+||.++||+||+||+|++++++|+.+. +...+++..+ +|+||||||||+||++|++||||||||||||
T Consensus       158 ~Rs~i~~~iR~fl~~~gFiEVeTPiL~~s~~eGAr~~~~p~~~~~~~~y~L~qSPQlykq~lm~~G~~rvfqI~~~FR~E  237 (706)
T PRK12820        158 KRHRIIKCARDFLDSRGFLEIETPILTKSTPEGARDYLVPSRIHPKEFYALPQSPQLFKQLLMIAGFERYFQLARCFRDE  237 (706)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEeCCccccCCCCCCcceEEeeecCCCcceecCCCHHHHHHHHHhccCCcEEEEechhcCC
Confidence            9999999999999999999999999998888875542 2334455544 5999999999999999999999999999999


Q ss_pred             cCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHH
Q 013856          328 DSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQML  407 (435)
Q Consensus       328 ~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll  407 (435)
                      ++++.|| ||||||||||+|++ ++|+|+++|+||+++++..           +       ..+..||+||||.||++.+
T Consensus       238 ~~~t~r~-pEFT~LE~E~af~d-~~dvm~l~E~li~~v~~~~-----------~-------~~~~~pf~r~ty~eA~~~y  297 (706)
T PRK12820        238 DLRPNRQ-PEFTQLDIEASFID-EEFIFELIEELTARMFAIG-----------G-------IALPRPFPRMPYAEAMDTT  297 (706)
T ss_pred             CCCCCcC-ccccccceeeccCC-HHHHHHHHHHHHHHHHHhc-----------C-------cCCCCCceEEEHHHHHHHh
Confidence            9988877 99999999999996 9999999999999998511           0       1234699999999999633

>PRK00476 aspS aspartyl-tRNA synthetase; Validated

Probab=100.00  E-value=3.9e-61  Score=514.39  Aligned_cols=277  Identities=29%  Similarity=0.447  Sum_probs=241.9

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.++++...+.|++|+|+|||+++|.+| +++|++|||+++.||||++.    . .++++++..|+.||+|.|+|+|...
T Consensus         6 ~~~~~l~~~~~g~~V~l~GwV~~~R~~g-~l~Fi~LrD~~g~iQ~v~~~----~-~~~~~~~~~l~~es~V~V~G~v~~~   79 (588)
T PRK00476          6 HYCGELRESHVGQTVTLCGWVHRRRDHG-GLIFIDLRDREGIVQVVFDP----D-AEAFEVAESLRSEYVIQVTGTVRAR   79 (588)
T ss_pred             eeHHHhhHHhCCCEEEEEEEEEEEEeCC-CeEEEEEEeCCceEEEEEeC----C-HHHHHHHhCCCCCCEEEEEEEEEec
Confidence            4577787788999999999999999999 89999999999999999974    1 5678889999999999999999863


Q ss_pred             C-ccC--CCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          173 D-VEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       173 ~-~~~--~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      + .++  +..+|++||.+++|.|||+|.++|+.+.+..                 ..+.++|+++||||||++..+++|+
T Consensus        80 ~~~~~n~~~~~g~~El~~~~i~il~~a~~lP~~~~~~~-----------------~~~~~~Rl~~R~LdlR~~~~~~~l~  142 (588)
T PRK00476         80 PEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDDEE-----------------DVSEELRLKYRYLDLRRPEMQKNLK  142 (588)
T ss_pred             CCcccCccCCCCcEEEEEeEEEEEecCCCCCCcccccc-----------------cCChhhhhhcceEeecCHHHHHHHH
Confidence            2 222  2236889999999999999977888764321                 1567999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeec---cCCCceeeccChHHHHhhhccCCCceeEEEecceec
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD---YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA  326 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~---~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~  326 (435)
                      +||.|++++|+||.++||+||+||+|++++++| +.+|.+.   +.+..+||+||||||||+|+++|++|||+|||||||
T Consensus       143 ~Rs~i~~~iR~ff~~~gFiEV~TP~L~~s~~eg-a~~f~v~~~~~~~~~~~L~qSpql~kq~l~~~g~~rvfqi~~~FR~  221 (588)
T PRK00476        143 LRSKVTSAIRNFLDDNGFLEIETPILTKSTPEG-ARDYLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRD  221 (588)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCeeecCCCCC-CccceecccccCCceeecCCCHHHHHHHHHhcccCceEEEeceeec
Confidence            999999999999999999999999999887876 5668875   678888999999999999999999999999999999


Q ss_pred             CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHH
Q 013856          327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQM  406 (435)
Q Consensus       327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~l  406 (435)
                      |++++.||+ |||||||||+|++ |+|+|+++|+||+++++.+.+                 .++..||+||||.||++ 
T Consensus       222 E~~~~~r~~-EFt~le~e~af~~-~~dvm~~~E~li~~i~~~~~~-----------------~~~~~pf~r~ty~ea~~-  281 (588)
T PRK00476        222 EDLRADRQP-EFTQIDIEMSFVT-QEDVMALMEGLIRHVFKEVLG-----------------VDLPTPFPRMTYAEAMR-  281 (588)
T ss_pred             CCCCCCcCc-ccccceeeecCCC-HHHHHHHHHHHHHHHHHHHhC-----------------ccCCCCceEEEHHHHHH-
Confidence            999999987 9999999999996 999999999999999988752                 12346899999999995 


Q ss_pred             HHHcCCCCC
Q 013856          407 LKDAGVEID  415 (435)
Q Consensus       407 l~~~g~~~~  415 (435)
                        ..|.+-|
T Consensus       282 --~yg~dkP  288 (588)
T PRK00476        282 --RYGSDKP  288 (588)
T ss_pred             --HHCCCCC
Confidence              5566544

>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.7e-60  Score=489.92  Aligned_cols=272  Identities=30%  Similarity=0.464  Sum_probs=246.4

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|..+++|++|+++||||+.|.+| +|+|++|||..|.+|+|++..   .+++.++.+..|+.|++|.|+|+|...
T Consensus         4 ~~cg~l~~~~vG~~V~L~GWV~r~Rd~G-gliFiDLRDr~GivQvv~~~~---~~~~~~~~a~~lr~E~vi~V~G~V~~R   79 (585)
T COG0173           4 HYCGELRESHVGQTVTLSGWVHRRRDHG-GLIFIDLRDREGIVQVVFDPE---DSPEAFEVASRLRNEFVIQVTGTVRAR   79 (585)
T ss_pred             eeccccCHHHCCCEEEEEeeeeeccccC-CeEEEEcccCCCeEEEEECCc---cCHHHHHHHHhcCceEEEEEEEEEEec
Confidence            5788999999999999999999999999 799999999999999999853   467888999999999999999988754


Q ss_pred             Cc---cCCCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          173 DV---EIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       173 ~~---~~~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      +.   ..+-.||++||++++|.|||.|.+|||.+.|..                 .++.|+||.|||||||.|.++..++
T Consensus        80 ~e~~~N~~l~TGeiEv~a~~i~vln~s~~lPf~i~d~~-----------------~~~Ee~RLkYRyLDLRR~~m~~~l~  142 (585)
T COG0173          80 PEGTINPNLPTGEIEVLAEEIEVLNASKTLPFQIEDET-----------------NASEEIRLKYRYLDLRRPEMQKNLK  142 (585)
T ss_pred             CccccCCCCCcceEEEEeeeEEEEecCCCCCcCCCCCC-----------------CcchhhhhhhhhhhhcCHHHHHHHH
Confidence            32   334567999999999999999999999987631                 2678999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeec---cCCCceeeccChHHHHhhhccCCCceeEEEecceec
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD---YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA  326 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~---~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~  326 (435)
                      .||+++.++|+||+++||+||+||+|+.+++|| |..|-|.   +-|..+-|.||||||||.||++||+|+|+|++|||.
T Consensus       143 lR~kv~~~iR~~ld~~gF~EiETPiLtkSTPEG-ARDfLVPSRv~~G~FYALPQSPQlfKQLLMvsGfdRYyQIarCFRD  221 (585)
T COG0173         143 LRSKVTKAIRNFLDDQGFLEIETPILTKSTPEG-ARDFLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRD  221 (585)
T ss_pred             HHHHHHHHHHHHHhhcCCeEeecCccccCCCcc-ccccccccccCCCceeecCCCHHHHHHHHHHhcccceeeeeeeecc
Confidence            999999999999999999999999999988775 8888885   478889999999999999999999999999999999


Q ss_pred             CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856          327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ  405 (435)
Q Consensus       327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~  405 (435)
                      |+.+..|. |||||+|+||+|.+ -+|+|+++|+|+.++|+.+.+                 +++..||+||||+||+.
T Consensus       222 EDlRaDRQ-PEFTQiD~EmSF~~-~edv~~~~E~l~~~vf~~~~~-----------------i~l~~pFprmtY~eAm~  281 (585)
T COG0173         222 EDLRADRQ-PEFTQIDLEMSFVD-EEDVMELIEKLLRYVFKEVKG-----------------IELKTPFPRMTYAEAMR  281 (585)
T ss_pred             cccccccC-CcceeEeEEeecCC-HHHHHHHHHHHHHHHHHHhcC-----------------CccCCCcccccHHHHHH
Confidence            99999999 99999999999998 799999999999999998753                 23446999999999995

>KOG0555 consensus Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.9e-56  Score=441.07  Aligned_cols=368  Identities=23%  Similarity=0.316  Sum_probs=286.4

Q ss_pred             cCCccccChhHHHHHHHHHHHHHHHHHHHHHH--HHHhhhccccc---CCCCCCccCCChhhhhccCCCCCCCccccccC
Q 013856           15 DSSSQSISKKAAKKEAAKKAKEERRKEAEAAA--SAASALSIEEE---GPLANNYGDVPLQELQSVNDPQTGKWSEAVSG   89 (435)
Q Consensus        15 ~~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~--~~~~~~~~~~~---d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~   89 (435)
                      ++.=++.||++|||.+|.-..+.+|.+++..+  +.+++.+++.+   .+.-..+-                    +.+.
T Consensus        50 ~e~~e~~sk~~Lkk~~kg~~~~~~k~~k~~~~ea~~~ek~~~~le~a~ki~ised~--------------------slp~  109 (545)
T KOG0555|consen   50 SEEYEPISKSALKKIKKGWVRECKKSAKASQKEAEASEKREKNLEEAKKITISEDK--------------------SLPA  109 (545)
T ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhHHhhhcccccCCC--------------------CCch
Confidence            34446899999999998777666665432111  11111111111   11111111                    1233


Q ss_pred             cceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856           90 REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV  169 (435)
Q Consensus        90 ~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v  169 (435)
                      .+-++|.+.. ++.|+.|.|.||||+.|.+ ++|+|++|||+++.||||++.... .+   ++ +-.|+.+|.|.|.|++
T Consensus       110 ak~iki~~s~-~~r~qrVkv~gWVhrlR~q-k~l~FivLrdg~gflqCVl~~kl~-~~---yd-~~~Ls~essv~vYG~i  182 (545)
T KOG0555|consen  110 AKKIKIYDST-ENRGQRVKVFGWVHRLRRQ-KSLIFIVLRDGTGFLQCVLSDKLC-QS---YD-ALTLSTESSVTVYGTI  182 (545)
T ss_pred             hheeeecccc-cccCceEEeehhhHhhhhc-CceEEEEEecCCceEEEEEcchhh-hh---hc-cccccccceEEEEEEE
Confidence            3456666543 5789999999999999999 599999999999999999985321 11   11 1258999999999999


Q ss_pred             ecCCccCCCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          170 SVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       170 ~~~~~~~~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      ++.+. .|++.++.||.|.-+.|++.++.-.+...   ..+              -.+.+..|+||||-+|....+.+++
T Consensus       183 ~~~p~-GK~apgghEl~vdy~Eiig~Apag~~~n~---lne--------------~s~~~~~LdnrHl~iRge~~s~vLK  244 (545)
T KOG0555|consen  183 KKLPE-GKSAPGGHELNVDYWEIIGLAPAGGFDNP---LNE--------------ESDVDVLLDNRHLVIRGENASKVLK  244 (545)
T ss_pred             ecCcC-CCCCCCCceEEeeeeeeecccCCCccccc---ccc--------------cCCcceEeccceeEEechhHHHHHH
Confidence            87543 35667899999999999987722111100   000              1456788999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcC
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS  329 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s  329 (435)
                      +|+.+++++|++|.+.|+.||.+|.|.....|||++.|+++|||.++||+||.||||+.++.+ +++||+|.++||||.|
T Consensus       245 ~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQVEGGsTLFkldYyGEeAyLTQSSQLYLEtclpA-lgdvy~I~~SyRAEkS  323 (545)
T KOG0555|consen  245 ARAALLRAMRDHYFERGYTEVTPPTMVQTQVEGGSTLFKLDYYGEEAYLTQSSQLYLETCLPA-LGDVYCIQQSYRAEKS  323 (545)
T ss_pred             HHHHHHHHHHHHHHhcCceecCCCceEEEEecCcceEEeecccCchhhccchhHHHHHHhhhh-cCceeEecHhhhhhhh
Confidence            999999999999999999999999999999999999999999999999999999999988764 9999999999999999


Q ss_pred             CCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhH-HHHHHhhhcCCCccccCCCCCccccHHHHHHHHH
Q 013856          330 YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCK-KELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       330 ~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~-~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~  408 (435)
                      .|.|||.|||++|+|++|.+ ++++|+.+|+|++..+..+++.-. ..|..++..|..    -..||.||.|+|||++|+
T Consensus       324 rTRRHLsEytHVEaE~aflt-fd~ll~~iE~lvc~~vdr~l~dp~~~li~~lnP~f~~----P~~PFkRm~Y~dAI~wLk  398 (545)
T KOG0555|consen  324 RTRRHLSEYTHVEAECAFLT-FDDLLDRIEALVCDSVDRLLEDPIAPLIKQLNPDFKA----PKRPFKRMNYSDAIEWLK  398 (545)
T ss_pred             hhhhhhhhheeeeeeccccc-HHHHHHHHHHHHHHHHHHHHhChhhhhHHHhCCCCCC----CCCchhcCCHHHHHHHHH
Confidence            99999999999999999997 999999999999999999886532 355555443321    135999999999999999


Q ss_pred             HcCCC------CCCCCCCCcHHHHHHHHHHh
Q 013856          409 DAGVE------IDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       409 ~~g~~------~~~~~dl~te~E~~L~~~vk  433 (435)
                      +.++.      +..|+|+....||++.+-|-
T Consensus       399 e~~vk~edg~~fefGdDI~eAaER~mtdtIg  429 (545)
T KOG0555|consen  399 EHDVKKEDGTDFEFGDDIPEAAERKMTDTIG  429 (545)
T ss_pred             hcCCcCccCcccccccchhhHHHHhhhhhcC
Confidence            98654      55679999999999988663

>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=6.4e-56  Score=438.94  Aligned_cols=298  Identities=27%  Similarity=0.402  Sum_probs=263.4

Q ss_pred             cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCC--eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC
Q 013856           99 NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERV--STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI  176 (435)
Q Consensus        99 ~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~--~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~  176 (435)
                      .....|++++|.|||.++|.+| +.+|++|.||+  ..+|||++.          ...+.+..|+.|.|+|++..+    
T Consensus        15 ~~~~~g~~~~i~GWvKsvr~~~-~~~Fl~i~DGs~~~~lQvVv~~----------~~~q~la~Gt~i~~~g~l~~~----   79 (446)
T KOG0554|consen   15 GHPRAGDTISIGGWVKSVRKLK-KVTFLDINDGSCPSPLQVVVDS----------EQSQLLATGTCISAEGVLKVS----   79 (446)
T ss_pred             cCCCCCCceeecchhhhccccc-ceEEEEecCCCCCcceEEEech----------HHhhhccccceEEEEeeEEec----
Confidence            4457799999999999999999 78999999997  589999985          234679999999999999876    


Q ss_pred             CCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHH
Q 013856          177 KGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVG  255 (435)
Q Consensus       177 ~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~  255 (435)
                      ++..+++|+.+.+|.+++.+ +.+|++.+.                    ..++...+.-||+.|+....+++|+||.+.
T Consensus        80 ~~~~q~iel~~eki~~vG~v~~~ypl~Kk~--------------------lt~e~LR~~~HLR~Rt~~~~av~RvRs~~~  139 (446)
T KOG0554|consen   80 KGAKQQIELNAEKIKVVGTVDESYPLQKKK--------------------LTPEMLRDKLHLRSRTAKVGAVLRVRSALA  139 (446)
T ss_pred             cchheeeeeeeeEEEEEeecCCCCCCcccc--------------------CCHHHHhhcccccchhhHHHHHHHHHHHHH
Confidence            46678899999999999999 778887554                    345666678899999999999999999999


Q ss_pred             HHHHHHhhcCCeeeecCceeeecCCCCCcceeee--------ccCCCceeeccChHHHHhhhccCCCceeEEEecceecC
Q 013856          256 NIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAE  327 (435)
Q Consensus       256 ~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E  327 (435)
                      .+++.||.+++|++|+||+|+.++|||++++|.|        +|||+++||++|.|||++. ++.++.|||.+||+||||
T Consensus       140 ~a~h~ffq~~~F~~i~tPiiTt~DCEGaGE~F~vtt~~d~~~~fFg~p~fLTVSgQLhlE~-~a~~LsrvyTfgP~FRAE  218 (446)
T KOG0554|consen  140 FATHSFFQSHDFTYINTPIITTNDCEGAGEVFQVTTLTDYSKDFFGRPAFLTVSGQLHLEA-MACALSRVYTFGPTFRAE  218 (446)
T ss_pred             HHHHHHHHHcCceEecCcEeeccCCCCCcceEEEEecCcccccccCCceEEEEeceehHHH-HHhhhcceEeeccceecc
Confidence            9999999999999999999999999999999987        5899999999999999995 567899999999999999


Q ss_pred             cCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc-c----ccCCCCCccccHHH
Q 013856          328 DSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE-P----LKYKPKTLRLTFEE  402 (435)
Q Consensus       328 ~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~-~----~~~~~p~~rit~~e  402 (435)
                      +|+++|||.||||+|.|+||++.++|+|+++|.+++++++.+.++|.++++...+..... .    ..+..+|.||||.|
T Consensus       219 nS~tsRHLAEFwMlEaE~AF~~sl~d~m~~~e~~~K~mik~llek~~edmel~~k~~~~~~~~rl~~~~~~~~~~~tYte  298 (446)
T KOG0554|consen  219 NSHTSRHLAEFWMLEAELAFAESLDDLMSCAEAYIKHMIKYLLEKCIEDMELMHKNEDPGSIDRLELVAKENLLRITYTE  298 (446)
T ss_pred             cCCchhHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhheeccccCCCccchhhhhccchhhhccHHH
Confidence            999999999999999999999889999999999999999999999999887655543211 1    12234689999999


Q ss_pred             HHHHHHHcC-----CCCCCCCCCCcHHHHHHHHHH
Q 013856          403 GVQMLKDAG-----VEIDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       403 ai~ll~~~g-----~~~~~~~dl~te~E~~L~~~v  432 (435)
                      ||++|.+++     .++.|+.||++|||++|++..
T Consensus       299 Aie~L~~a~t~~fk~~~kwG~~l~~ehe~yL~~~~  333 (446)
T KOG0554|consen  299 AIELLQKAVTKKFKTPPKWGIDLSTEHEKYLVEEC  333 (446)
T ss_pred             HHHHHHHhcccccccCcccccccchhhHHHHHHHh
Confidence            999999986     356899999999999999875

>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain

Probab=100.00  E-value=2.8e-50  Score=404.69  Aligned_cols=206  Identities=47%  Similarity=0.711  Sum_probs=190.0

Q ss_pred             CCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHH
Q 013856          226 VNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLH  305 (435)
Q Consensus       226 ~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~  305 (435)
                      +++++|++|||||+|++..++++++||.|++.+|+||.++||+||+||+|++++++|++++|.++|||+++||++|||||
T Consensus         2 ~~~~~~~~~r~l~lr~~~~~~~~~~rs~i~~~ir~~f~~~gf~eV~TP~l~~~~~e~~~~~f~~~~~~~~~yL~~Spql~   81 (322)
T cd00776           2 ANLETLLDNRHLDLRTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGAELFKVSYFGKPAYLAQSPQLY   81 (322)
T ss_pred             CChHhhhhCceeeeCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCceecCCCCccCCccccccCCCcceecCCHHHH
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCC
Q 013856          306 KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYP  385 (435)
Q Consensus       306 lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~  385 (435)
                      ||++++| ++|||+||||||||++++.|||||||||||||+|+++|+|+|+++|+||+++++.+.+.|..++..++ .++
T Consensus        82 lk~l~~~-~~~vf~i~~~FR~E~~~~~rHl~EFtmlE~e~~~~~~~~dlm~~~e~ll~~~~~~l~~~~~~~~~~~~-~~~  159 (322)
T cd00776          82 KEMLIAA-LERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLIEELIKYIFKRVLERCAKELELVN-QLN  159 (322)
T ss_pred             HHHHHHh-hhhhEEeccccccCCCCcCCCcceeeccceeeeccCCHHHHHHHHHHHHHHHHHHHHhccHHHHhhhh-ccC
Confidence            9999987 99999999999999998999999999999999999559999999999999999999999988877642 222


Q ss_pred             CccccCCCCCccccHHHHHHHHHHcCC--CCCCCCCCCcHHHHHHHHHHh
Q 013856          386 FEPLKYKPKTLRLTFEEGVQMLKDAGV--EIDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       386 ~~~~~~~~p~~rit~~eai~ll~~~g~--~~~~~~dl~te~E~~L~~~vk  433 (435)
                      .....+..||+||||.||+++|.+.|.  +++|++|+++++|++|+++++
T Consensus       160 ~~~~~~~~~~~rit~~eA~~~l~~~~~~~~~~~~~~l~~~~e~~l~~~~~  209 (322)
T cd00776         160 RELLKPLEPFPRITYDEAIELLREKGVEEEVKWGEDLSTEHERLLGEIVK  209 (322)
T ss_pred             cccccCCCCceEEEHHHHHHHHHHcCCCCCCCccchhcHHHHHHHHHHhC
Confidence            233445679999999999999999987  778999999999999999873

Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.

>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.9e-48  Score=392.04  Aligned_cols=281  Identities=25%  Similarity=0.382  Sum_probs=239.6

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV-  171 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~-  171 (435)
                      +.|+++....+|+.|.++|||...|.+| .+.|+.|||..|.||+.++.+..  . ...+....++.||+|.|.|+|+. 
T Consensus        36 ~~~~el~~~~vg~kv~l~GWl~~~~~~k-~~~F~~LRD~~G~vq~lls~~s~--~-l~~~~~~~v~~e~vv~v~gtvv~R  111 (628)
T KOG2411|consen   36 SLCGELSVNDVGKKVVLCGWLELHRVHK-MLTFFNLRDAYGIVQQLLSPDSF--P-LAQKLENDVPLEDVVQVEGTVVSR  111 (628)
T ss_pred             ccchhhccCccCCEEEEeeeeeeeeccc-cceEEEeeccCcceEEEecchhh--h-HHhcccCCCChhheEeeeeeEecc
Confidence            5788888889999999999999999996 89999999999999999885421  1 11233456999999999999874 


Q ss_pred             CCc--cCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHH
Q 013856          172 PDV--EIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIF  248 (435)
Q Consensus       172 ~~~--~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~  248 (435)
                      |..  +.+..+|.+|+...++++++++ ..+|+.+.|....+             -+.+..+||++||||||.+.++..+
T Consensus       112 p~~sin~km~tg~vev~~e~~~vln~~~~~~p~~v~df~~ld-------------~~~~er~rl~~RyldLR~~kmq~nL  178 (628)
T KOG2411|consen  112 PNESINSKMKTGFVEVVAEKVEVLNPVNKKLPFEVTDFKELD-------------DLAGERIRLRFRYLDLRRPKMQNNL  178 (628)
T ss_pred             cccccCccccccceEEEeeeeEEecCccCCCccchhhhhhhh-------------ccccccccchhhhhhhccHHHHHHH
Confidence            333  4456678999999999999999 99999988764211             1256789999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhc-CCeeeecCceeeecCCCCCcceeeecc---CCCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856          249 RIQSQVGNIFRQFLLS-ENFVEIHTPKLIAGSSEGGSAVFRLDY---KGQSACLAQSPQLHKQMSICGDFGRVFETGPVF  324 (435)
Q Consensus       249 ~~rs~i~~~~R~fl~~-~gF~EV~TP~l~~~~~egga~~F~~~~---~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F  324 (435)
                      |.||.+...+|+||.+ .||+||+||+|-.. +.|||..|.|..   -|..+-|.||||.|||+||+||++|+|+|++||
T Consensus       179 rlRS~~v~~iR~yl~n~~GFvevETPtLFkr-TPgGA~EFvVPtr~~~g~FYaLpQSPQQfKQlLMvsGidrYyQiARCf  257 (628)
T KOG2411|consen  179 RLRSNVVKKIRRYLNNRHGFVEVETPTLFKR-TPGGAREFVVPTRTPRGKFYALPQSPQQFKQLLMVSGIDRYYQIARCF  257 (628)
T ss_pred             HHHHHHHHHHHHHHhhhcCeeeccCcchhcc-CCCccceeecccCCCCCceeecCCCHHHHHHHHHHhchhhHHhHHhhh
Confidence            9999999999999987 57999999999875 566788898854   277888999999999999999999999999999


Q ss_pred             ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHH
Q 013856          325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV  404 (435)
Q Consensus       325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai  404 (435)
                      |.|+++..|+ |||||+|+||+|.+ .+|+|+++|+|+++++.....                 +....||+||||++|+
T Consensus       258 RDEdlR~DRQ-PEFTQvD~EMsF~~-~~dim~liEdll~~~ws~~k~-----------------~~l~~PF~riTY~~Am  318 (628)
T KOG2411|consen  258 RDEDLRADRQ-PEFTQVDMEMSFTD-QEDIMKLIEDLLRYVWSEDKG-----------------IQLPVPFPRITYADAM  318 (628)
T ss_pred             cccccCcccC-CcceeeeeEEeccC-HHHHHHHHHHHHHHhchhhcC-----------------CCCCCCcccccHHHHH
Confidence            9999988888 99999999999997 799999999999999987542                 1334699999999999


Q ss_pred             HHHHHcCCC
Q 013856          405 QMLKDAGVE  413 (435)
Q Consensus       405 ~ll~~~g~~  413 (435)
                      .   ..|.+
T Consensus       319 ~---~YG~D  324 (628)
T KOG2411|consen  319 D---KYGSD  324 (628)
T ss_pred             H---HhCCC
Confidence            6   45554

>PRK06462 asparagine synthetase A; Reviewed

Probab=100.00  E-value=4.1e-48  Score=390.73  Aligned_cols=201  Identities=29%  Similarity=0.423  Sum_probs=181.4

Q ss_pred             CCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCC---C----cceeeeccCCCceee
Q 013856          226 VNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG---G----SAVFRLDYKGQSACL  298 (435)
Q Consensus       226 ~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~eg---g----a~~F~~~~~~~~~~L  298 (435)
                      .+.++|++||++|+|++..+++|++||.|++++|+||.++||+||+||+|+++.++|   |    ...|.++|||+++||
T Consensus         8 ~~~~~~~~~r~~~lr~~~~~~il~~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~yL   87 (335)
T PRK06462          8 KEYEEFLRMSWKHISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVEYYL   87 (335)
T ss_pred             cchhhhhhhHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCccccCCccccccccCCCceee
Confidence            578999999999999999999999999999999999999999999999999876653   2    335778899999999


Q ss_pred             ccChHHHHhhhccCCCceeEEEecceecCcCCC--CccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHH
Q 013856          299 AQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKE  376 (435)
Q Consensus       299 ~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~  376 (435)
                      ++|||||||++ ++|++|||+||||||||++++  +|||||||||||||+|.+ |+|+|+++|+||+++++.+.++|..+
T Consensus        88 ~~Spql~k~ll-~~g~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d-~~dlm~~~e~lv~~i~~~~~~~~~~~  165 (335)
T PRK06462         88 ADSMILHKQLA-LRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGAD-LDEVMDLIEDLIKYLVKELLEEHEDE  165 (335)
T ss_pred             ccCHHHHHHHH-HhhcCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCC-HHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            99999998865 567999999999999999977  799999999999999985 99999999999999999999999988


Q ss_pred             HHHhhhcCCCccccCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHH
Q 013856          377 LEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       377 i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~v  432 (435)
                      |..++...+    .+..||+||||.||+++|++.|.+..+++||++++|++|++++
T Consensus       166 i~~~~~~~~----~~~~p~~rit~~eA~~~l~~~~~~~~~~~~l~~~~E~~l~~~~  217 (335)
T PRK06462        166 LEFFGRDLP----HLKRPFKRITHKEAVEILNEEGCRGIDLEELGSEGEKSLSEHF  217 (335)
T ss_pred             HHhcCCccc----cCCCCCeEEEHHHHHHHHHhcCCCcchHHHHhHHHHHHHHHHh
Confidence            877655332    2357999999999999999999888888999999999999876

>PF00152 tRNA-synt_2: tRNA synthetases class II (D, K and N) ; InterPro: IPR004364 The aminoacyl-tRNA synthetases (6

Probab=100.00  E-value=5.4e-47  Score=382.88  Aligned_cols=194  Identities=37%  Similarity=0.576  Sum_probs=165.8

Q ss_pred             CcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeec-----cCCCceeeccC
Q 013856          227 NQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD-----YKGQSACLAQS  301 (435)
Q Consensus       227 ~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~-----~~~~~~~L~~S  301 (435)
                      ++|+|++|||||+|++..+++|++||.|+++||+||.++||+||+||+|++++++||+++|.|+     |||+++||++|
T Consensus         1 ~~e~~~~~r~l~~r~~~~~~~~~~rs~i~~~ir~ff~~~~f~Ev~tP~l~~~~~~~~~~~F~v~~~~~~~~~~~~~L~~S   80 (335)
T PF00152_consen    1 DEETRLDNRHLDLRTPAMSSILRIRSAILQAIREFFDKRGFIEVDTPILTSSTCEGGAEPFSVDSEPGKYFGEPAYLTQS   80 (335)
T ss_dssp             -HHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTT-EEE---SEESSSSSSSSCSEEEEESTTEETTEEEEE-SS
T ss_pred             ChhhhhhccceeccCcHHHHHHHHHHHHHHHHHHHHHhCCceEEcCceeeccccCccccccccccchhhhcccceecCcC
Confidence            3689999999999999999999999999999999999999999999999999999999999999     99999999999


Q ss_pred             hHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhh
Q 013856          302 PQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVA  381 (435)
Q Consensus       302 pql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~  381 (435)
                      ||||||+++++|++|||+||||||||+++|.|||||||||||||+|++ ++++|+++|+||+++++.+.++.. .+ .+ 
T Consensus        81 pql~~k~ll~~g~~~vf~i~~~FR~E~~~~~rHl~EFtmLE~e~a~~~-~~~lm~~~e~li~~i~~~~~~~~~-~~-~~-  156 (335)
T PF00152_consen   81 PQLYLKRLLAAGLERVFEIGPCFRNEESRTRRHLPEFTMLEWEMAFAD-YDDLMDLIEELIKYIFKELLENAK-EL-SL-  156 (335)
T ss_dssp             SHHHHHHHHHTTHSEEEEEEEEE-BSSSCBTTBSSEEEEEEEEEETSS-HHHHHHHHHHHHHHHHHHHHHHHH-HH-HT-
T ss_pred             hHHHHhhhccccchhhhheecceeccCcccccchhhhhhhhhccccCc-HHHhHHHHHHHHHHHHHHHhccCc-cc-cc-
Confidence            999999999999999999999999999999999999999999999997 888999999999999999976622 11 11 


Q ss_pred             hcCCCccccCCCCCccccHHHHHHHHHHcCCCCCC-----------------CCCCCcHHHHHHHH
Q 013856          382 KQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDP-----------------LGDLNTESERKLGQ  430 (435)
Q Consensus       382 ~~~~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~-----------------~~dl~te~E~~L~~  430 (435)
                            .+++..||+||+|.||++++...+.++..                 +.+|++..|+.|+.
T Consensus       157 ------~~~~~~~f~ri~~~ea~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~e~~L~~  216 (335)
T PF00152_consen  157 ------NIDLPKPFPRITYEEAFEIYGGDKPDLRFDEELDDLAEIEELEFEVGRLLSEEVEPYLVE  216 (335)
T ss_dssp             ------CEESSSS-EEEEHHHHHHHHHHTTTTTTTCHHHHHHHHHHHTTHHCHHHHHHHHHHHHHH
T ss_pred             ------cccccCCceEeeehHHHHHhhcccccchhHHHHHHHHHHhcccchHHHHHHHHHHHHhhh
Confidence                  34455789999999999999987755443                 34567777777763

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry includes the asparagine, aspartic acid and lysine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1N9W_B 1BBU_A 1BBW_A 4EX5_B 3E9I_A 3E9H_C 3A74_C 1NNH_A 3M4P_C 3M4Q_B ....

>TIGR00462 genX lysyl-tRNA synthetase-like protein GenX

Probab=100.00  E-value=1.3e-41  Score=339.28  Aligned_cols=163  Identities=21%  Similarity=0.309  Sum_probs=147.8

Q ss_pred             HHHHHHHHHHHHHHhhcCCeeeecCceeeec-CCCCCcceeeeccCC-----CceeeccChHHHHhhhccCCCceeEEEe
Q 013856          248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAG-SSEGGSAVFRLDYKG-----QSACLAQSPQLHKQMSICGDFGRVFETG  321 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~-~~egga~~F~~~~~~-----~~~~L~~Spql~lq~li~~g~~rVfeIg  321 (435)
                      +++||.|++++|+||.++||+||+||+|+++ ++++|+++|+++||+     +++||+||||||||+++++|++||||||
T Consensus         1 l~~rs~i~~~ir~~f~~~gF~EV~TP~l~~~~~~e~~~~~F~~~y~~~~~~~~~~yL~~Spql~lk~ll~~g~~rVfeig   80 (304)
T TIGR00462         1 LRARARLLAAIRAFFAERGVLEVETPLLSPAPVTDPHLDAFATEFLGPDGEGRPLYLQTSPEYAMKRLLAAGSGPIFQIC   80 (304)
T ss_pred             ChHHHHHHHHHHHHHHHCCCEEEECCeEecCCCCCcCCcceeeeccCCCCCCcceeeecCHHHHHHHHHhccCCCEEEEc
Confidence            4789999999999999999999999999987 588899999999876     6999999999999999999999999999


Q ss_pred             cceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHH
Q 013856          322 PVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE  401 (435)
Q Consensus       322 p~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~  401 (435)
                      ||||||++ ++||||||||||||++|.+ |+|+|+++|+||+++++.+                      ..||+||||.
T Consensus        81 p~FRaE~~-~~rHl~EFtmLE~e~~~~d-~~d~m~~~e~li~~i~~~~----------------------~~~~~~it~~  136 (304)
T TIGR00462        81 KVFRNGER-GRRHNPEFTMLEWYRPGFD-YHDLMDEVEALLQELLGDP----------------------FAPWERLSYQ  136 (304)
T ss_pred             CceeCCCC-CCCcccHHHhHHHHHHcCC-HHHHHHHHHHHHHHHHHhc----------------------CCCcEEEEHH
Confidence            99999998 6899999999999999986 9999999999999998751                      2467777777


Q ss_pred             HHHH-----------------HHHHcCCCCCCCCCCCcHHHHHHHHHHhc
Q 013856          402 EGVQ-----------------MLKDAGVEIDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       402 eai~-----------------ll~~~g~~~~~~~dl~te~E~~L~~~vke  434 (435)
                      ||++                 ++++.|+++++.+|+++.+|+.|+++|+.
T Consensus       137 ea~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~d~~~~~e~~l~~~ie~  186 (304)
T TIGR00462       137 EAFLRYAGIDPLTASLDELAAAAAAHGVRASEEDDRDDLLDLLFSEKVEP  186 (304)
T ss_pred             HHHHHHhCCCcccCCHHHHHHHHHHcCCCCCCCCChhHHHHHHHHHHHHH
Confidence            7754                 67788888888899999999999999864

Many Gram-negative bacteria have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS. The protein is termed GenX after its designation in E. coli. Interestingly, genX often is located near a homolog of lysine-2,3-aminomutase. Its function is unknown.

>cd00775 LysRS_core Lys_tRNA synthetase (LysRS) class II core domain

Probab=100.00  E-value=1.1e-40  Score=335.95  Aligned_cols=178  Identities=24%  Similarity=0.376  Sum_probs=150.4

Q ss_pred             hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhccCCCceeEE
Q 013856          242 LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSICGDFGRVFE  319 (435)
Q Consensus       242 ~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~~g~~rVfe  319 (435)
                      +.++++|++||.|+++||+||.++||+||+||+|+++++++++.+|.+  +||+.++||+||||||||+++++|++|||+
T Consensus         2 ~~~~~~l~~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~~~~~~~f~~~~~~~~~~~yL~~Spql~~k~ll~~g~~~vf~   81 (329)
T cd00775           2 EEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYLRIAPELYLKRLIVGGFERVYE   81 (329)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccccCCCCccceeEEeccCCCCcceeeccCHHHHHHHHHhcCCCcEEE
Confidence            568899999999999999999999999999999998766667789988  789999999999999999999999999999


Q ss_pred             EecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCcccc
Q 013856          320 TGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLT  399 (435)
Q Consensus       320 Igp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit  399 (435)
                      ||||||||++ +.|||||||||||||+|++ |+|+|+++|+||+++++.+.+.+  ++..     ....+.+..||+|||
T Consensus        82 i~~~FR~E~~-~~rHl~EFt~le~e~~~~~-~~~~m~~~e~li~~i~~~~~~~~--~~~~-----~~~~~~~~~pf~rit  152 (329)
T cd00775          82 IGRNFRNEGI-DLTHNPEFTMIEFYEAYAD-YNDMMDLTEDLFSGLVKKINGKT--KIEY-----GGKELDFTPPFKRVT  152 (329)
T ss_pred             EeccccCCCC-CCCCCCceEEEEEeeecCC-HHHHHHHHHHHHHHHHHHHhCCc--eeec-----CCccccCCCCceEEE
Confidence            9999999998 6899999999999999985 99999999999999999987653  2222     222234457999999


Q ss_pred             HHHHHHHHHHcCCCCCCCCCCCc-HHHHHHHH
Q 013856          400 FEEGVQMLKDAGVEIDPLGDLNT-ESERKLGQ  430 (435)
Q Consensus       400 ~~eai~ll~~~g~~~~~~~dl~t-e~E~~L~~  430 (435)
                      |.||++  +..|+++.+.++..+ +.++.++.
T Consensus       153 y~eA~~--~~~g~~~~~~~~~~~~~~~~~~~~  182 (329)
T cd00775         153 MVDALK--EKTGIDFPELDLEQPEELAKLLAK  182 (329)
T ss_pred             HHHHHH--HHhCCCcccccccCCHHHHHHHHH
Confidence            999998  457877655555544 34444444

Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.

>cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain

Probab=100.00  E-value=2.5e-37  Score=303.45  Aligned_cols=152  Identities=29%  Similarity=0.462  Sum_probs=138.4

Q ss_pred             HHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccC--CCceeeccChHHHHhhhccCCCceeEEEeccee
Q 013856          248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYK--GQSACLAQSPQLHKQMSICGDFGRVFETGPVFR  325 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~--~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR  325 (435)
                      |++||.|++.+|+||.++||+||+||+|+++.+++|+++|.++|+  |+++||++|||||+|+++++|++|||+||||||
T Consensus         1 ~~~rs~i~~~ir~~f~~~gf~ev~tP~l~~~~~~~~~~~f~~~~~~~g~~~~L~~Spql~~~~~~~~~~~~vf~i~~~fR   80 (269)
T cd00669           1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLFKKRLMVGGLDRVFEINRNFR   80 (269)
T ss_pred             CcHHHHHHHHHHHHHHHCCCEEEECCEEeccCCccccceEEeeecCCCCcEEeecCHHHHHHHHHhcCCCcEEEEeccee
Confidence            579999999999999999999999999998889999999999988  999999999999999999999999999999999


Q ss_pred             cCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856          326 AEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ  405 (435)
Q Consensus       326 ~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~  405 (435)
                      +| +.|.||++|||||||||+|.+ |+|+|+++|+||+++++.+.++|..++..       ...++..||+||||.||++
T Consensus        81 ~e-~~~~~hl~EF~~le~e~~~~~-~~dvm~~~e~lv~~i~~~~~~~~~~~~~~-------~~~~~~~~~~rit~~ea~~  151 (269)
T cd00669          81 NE-DLRARHQPEFTMMDLEMAFAD-YEDVIELTERLVRHLAREVLGVTAVTYGF-------ELEDFGLPFPRLTYREALE  151 (269)
T ss_pred             CC-CCCCCcccceeEEEEEEecCC-HHHHHHHHHHHHHHHHHHHhccccccccc-------cccccCCCceEeeHHHHHH
Confidence            99 579999999999999999995 99999999999999999998877665421       1224557999999999999


Q ss_pred             HHH
Q 013856          406 MLK  408 (435)
Q Consensus       406 ll~  408 (435)
                      +|.
T Consensus       152 ~~~  154 (269)
T cd00669         152 RYG  154 (269)
T ss_pred             HhC
Confidence            885

This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.

>cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain

Probab=100.00  E-value=4.1e-36  Score=296.41  Aligned_cols=151  Identities=32%  Similarity=0.514  Sum_probs=131.2

Q ss_pred             HHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccC---CCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856          248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYK---GQSACLAQSPQLHKQMSICGDFGRVFETGPVF  324 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~---~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F  324 (435)
                      +++||.|+++||+||.++||+||+||+|++++++|+ .+|.+.|+   +..+||+||||||||+++++|++|||+|||||
T Consensus         1 l~~Rs~i~~~iR~f~~~~gfiEV~TP~L~~~~~~g~-~~f~~~~~~~~~~~~~L~~Spql~lk~ll~~g~~~v~~i~~~f   79 (280)
T cd00777           1 LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEGA-RDFLVPSRLHPGKFYALPQSPQLFKQLLMVSGFDRYFQIARCF   79 (280)
T ss_pred             CchHHHHHHHHHHHHHHCCCEEEeCCeeecCCCCCC-CCceeccccCCCceeecccCHHHHHHHHHhcCcCcEEEeccce
Confidence            478999999999999999999999999998778754 55998875   45566999999999999999999999999999


Q ss_pred             ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHH
Q 013856          325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV  404 (435)
Q Consensus       325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai  404 (435)
                      |+|++++.||+ ||||||||++|.+ |+|+|+++|+||++++..+.+.                 .+..||+||||.||+
T Consensus        80 R~e~~~~~r~~-Ef~~~e~e~~~~~-~~dlm~~~e~li~~i~~~~~~~-----------------~~~~p~~rity~eA~  140 (280)
T cd00777          80 RDEDLRADRQP-EFTQIDIEMSFVD-QEDIMSLIEGLLKYVFKEVLGV-----------------ELTTPFPRMTYAEAM  140 (280)
T ss_pred             eCCCCCCCccc-eeEEeEeeeccCC-HHHHHHHHHHHHHHHHHHHhCC-----------------CCCCCCceeeHHHHH
Confidence            99999887775 9999999999995 9999999999999999887532                 234689999999999


Q ss_pred             HHHHHcCCCCCCCCCCC
Q 013856          405 QMLKDAGVEIDPLGDLN  421 (435)
Q Consensus       405 ~ll~~~g~~~~~~~dl~  421 (435)
                      +.   .|+++.|+.|+.
T Consensus       141 ~~---~~~~~~~~~d~~  154 (280)
T cd00777         141 ER---YGFKFLWIVDFP  154 (280)
T ss_pred             HH---hCCCCccccCCc
Confidence            84   466666776764

Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain.

>PRK09350 poxB regulator PoxA; Provisional

Probab=100.00  E-value=5e-34  Score=285.02  Aligned_cols=163  Identities=20%  Similarity=0.251  Sum_probs=135.5

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC-CCcceeeeccC------CCceeeccChHHHHhhhccCCCcee
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE-GGSAVFRLDYK------GQSACLAQSPQLHKQMSICGDFGRV  317 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e-gga~~F~~~~~------~~~~~L~~Spql~lq~li~~g~~rV  317 (435)
                      ..+|++|+.|++.||+||.++||+||+||+|+..... ....+|.++|+      |+.+||+||||+|+|+++++|++||
T Consensus         2 ~~~l~~r~~i~~~ir~~f~~~gf~EV~TP~l~~~~~~~~~~~~f~~~y~~~~~~~~~~~~L~~SPe~~~kr~la~~~~rv   81 (306)
T PRK09350          2 IPNLLKRAKIIAEIRRFFADRGVLEVETPILSQATVTDIHLVPFETRFVGPGASQGKTLWLMTSPEYHMKRLLAAGSGPI   81 (306)
T ss_pred             hHHHHHHHHHHHHHHHHHHHCCCEEEECCeEecccCCCccCCceeeeeccccccCCcceEEecCHHHHHHHHhhccccce
Confidence            4689999999999999999999999999999865432 24457999887      7999999999999999999999999


Q ss_pred             EEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCcc
Q 013856          318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLR  397 (435)
Q Consensus       318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~r  397 (435)
                      |+||||||||++ +.||++||||||||++|.+ |+|+|+++|+||++++..                        .||+|
T Consensus        82 f~i~~~FR~e~~-~~~H~~EFt~lE~y~~~~d-~~dlm~~~E~li~~i~~~------------------------~~~~~  135 (306)
T PRK09350         82 FQICKSFRNEEA-GRYHNPEFTMLEWYRPHYD-MYRLMNEVDDLLQQVLDC------------------------EPAES  135 (306)
T ss_pred             EEecceeecCCC-CCCCCcHHHhhhhhhhCCC-HHHHHHHHHHHHHHHHhc------------------------CCceE
Confidence            999999999998 9999999999999999996 999999999999998753                        24555


Q ss_pred             ccHHHHH-----------------HHHHHcCC--CCCCCCCCCcHHHHHHHHHHh
Q 013856          398 LTFEEGV-----------------QMLKDAGV--EIDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       398 it~~eai-----------------~ll~~~g~--~~~~~~dl~te~E~~L~~~vk  433 (435)
                      |+|.||+                 +++.+.|+  ..++.+|+.+..++.++.+|.
T Consensus       136 i~~~eaf~~~~g~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~l~~~~ve  190 (306)
T PRK09350        136 LSYQQAFLRYLGIDPLSADKTQLREVAAKLGLSNIADEEEDRDTLLQLLFTFGVE  190 (306)
T ss_pred             EEHHHHHHHHhCCCCCcCCHHHHHHHHHHcCCCCcCCCCCCHHHHHHHHHHHHHH
Confidence            6665554                 44555665  334455777777777777664

>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=99.95  E-value=2.4e-28  Score=234.56  Aligned_cols=141  Identities=23%  Similarity=0.380  Sum_probs=123.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC-CCCCcceeeeccC------CCceeeccChHHHHhhhccCCCceeE
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-SEGGSAVFRLDYK------GQSACLAQSPQLHKQMSICGDFGRVF  318 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~egga~~F~~~~~------~~~~~L~~Spql~lq~li~~g~~rVf  318 (435)
                      ..+..|+.|++.||.||.++||+||+||.|+.+. ++..-.+|.|.|+      +.++||+.|||+++|+|+++|-+++|
T Consensus        14 ~~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~a~vtd~hL~~F~Te~~~~~~~~~~~l~L~TSPEy~mKrLLAag~~~if   93 (322)
T COG2269          14 DNLLKRAAIIAAIRRFFAERGVLEVETPALSVAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSPEYHMKRLLAAGSGPIF   93 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCceEecchHhhcCCCCccceeeeeeEEeccCccccceeeeecCcHHHHHHHHHccCCcch
Confidence            4588999999999999999999999999997653 4445558999885      37899999999999999999999999


Q ss_pred             EEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccc
Q 013856          319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRL  398 (435)
Q Consensus       319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~ri  398 (435)
                      +||+||||++ .+.+|+|||||||||..+.+ |+-+|+.+.+|+..++...                        ++.|+
T Consensus        94 ql~kvfRN~E-~G~~H~PEFTMLEWYrv~~d-~~~lm~e~~~Ll~~vl~~~------------------------~~E~l  147 (322)
T COG2269          94 QLGKVFRNEE-MGRLHNPEFTMLEWYRVGCD-YYRLMNEVDDLLQLVLECV------------------------EAERL  147 (322)
T ss_pred             hhhHHHhccc-ccccCCCceeEeeeeccCCc-HHHHHHHHHHHHHHHHccC------------------------Cccee
Confidence            9999999999 69999999999999999997 9999999999988877542                        36788


Q ss_pred             cHHHHHHHHHHcCCCC
Q 013856          399 TFEEGVQMLKDAGVEI  414 (435)
Q Consensus       399 t~~eai~ll~~~g~~~  414 (435)
                      ||.||+.  +..|+++
T Consensus       148 s~~eaF~--r~~gid~  161 (322)
T COG2269         148 SYQEAFL--RYLGIDP  161 (322)
T ss_pred             eHHHHHH--HHhCCCc
Confidence            8888885  7777653

>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS

Probab=99.91  E-value=9.8e-24  Score=186.78  Aligned_cols=128  Identities=30%  Similarity=0.431  Sum_probs=104.2

Q ss_pred             EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCC
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPD  173 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~  173 (435)
                      .++++.+...|+.|+|+|||+++|.+| +++|++|||+++.+|||+..+..   .+ ++++..|+.||+|.|+|++..++
T Consensus         4 ~~~~~~~~~~g~~V~i~Gwv~~~R~~g-k~~Fi~LrD~~g~~Q~v~~~~~~---~~-~~~~~~l~~gs~V~V~G~~~~~~   78 (135)
T cd04317           4 YCGELRESHVGQEVTLCGWVQRRRDHG-GLIFIDLRDRYGIVQVVFDPEEA---PE-FELAEKLRNESVIQVTGKVRARP   78 (135)
T ss_pred             ehhhCChhHCCCEEEEEEeEehhcccC-CEEEEEEecCCeeEEEEEeCCch---hH-HHHHhCCCCccEEEEEEEEECCC
Confidence            355666667799999999999999999 69999999999999999975421   22 57788999999999999998643


Q ss_pred             c-cC--CCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechh
Q 013856          174 V-EI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLA  243 (435)
Q Consensus       174 ~-~~--~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~  243 (435)
                      . ++  ...++++||++++|++|++|.++|+..++..                 ..+.++|++|||||||++.
T Consensus        79 ~~~~~~~~~~~~~El~~~~i~vl~~~~~lP~~~~~~~-----------------~~~~~~r~~~R~LdLR~~~  134 (135)
T cd04317          79 EGTVNPKLPTGEIEVVASELEVLNKAKTLPFEIDDDV-----------------NVSEELRLKYRYLDLRRPK  134 (135)
T ss_pred             ccccCCCCCCCcEEEEEeEEEEEECCCCCCCcccccc-----------------CCCHHHhhhcceeecCCCC
Confidence            2 11  2234679999999999999988999876531                 2678999999999999864

These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh

>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS)

Probab=99.88  E-value=3.6e-22  Score=170.24  Aligned_cols=107  Identities=22%  Similarity=0.365  Sum_probs=90.1

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV  185 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI  185 (435)
                      +|+|+|||+++|.+| +++|++|||+++.||||++.+.. .+..|.++.+.|+.||+|.|+|++..++      ++++||
T Consensus         1 ~v~v~GwV~~~R~~g-~~~Fi~lrd~~~~lQ~v~~~~~~-~~~~~~~~~~~l~~g~~V~v~G~v~~~~------~g~~El   72 (108)
T cd04322           1 EVSVAGRIMSKRGSG-KLSFADLQDESGKIQVYVNKDDL-GEEEFEDFKKLLDLGDIIGVTGTPFKTK------TGELSI   72 (108)
T ss_pred             CEEEEEEEEEEecCC-CeEEEEEEECCeEEEEEEECCCC-CHHHHHHHHhcCCCCCEEEEEEEEEecC------CCCEEE
Confidence            489999999999999 69999999999999999976532 2345555655699999999999998753      267999


Q ss_pred             EEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeee
Q 013856          186 QIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDI  239 (435)
Q Consensus       186 ~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldl  239 (435)
                      +++++++||+| .+||+...+.                   .+.++|+++|||||
T Consensus        73 ~~~~~~ils~~~~plP~~~~~~-------------------~~~~~r~~~R~ldl  108 (108)
T cd04322          73 FVKEFTLLSKSLRPLPEKFHGL-------------------TDVETRYRQRYLDL  108 (108)
T ss_pred             EeCEeEEeeccCCCCCCCccCc-------------------CChhheeecccccC
Confidence            99999999999 8999865432                   57899999999996

These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein

>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS)

Probab=99.84  E-value=3.7e-20  Score=156.22  Aligned_cols=100  Identities=51%  Similarity=0.742  Sum_probs=85.9

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCc-eeEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVE  184 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t-~~lE  184 (435)
                      .|+|+|||+++|.+|++++|++|||+++.|||++..+....+++|++++..|+.||+|.|+|++..++++.+++. +++|
T Consensus         1 ~V~i~Gwv~~~R~~g~k~~Fi~LrD~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~~~~~E   80 (102)
T cd04320           1 EVLIRARVHTSRAQGAKLAFLVLRQQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPIKSCTQQDVE   80 (102)
T ss_pred             CEEEEEEEEEeecCCCceEEEEEecCCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCcccCCCcCcEE
Confidence            489999999999999899999999999999999986532246788999999999999999999988655544433 7899


Q ss_pred             EEEeEEEEeecC-CCCCccccc
Q 013856          185 VQIKKLYCVSRA-AKTPITIED  205 (435)
Q Consensus       185 I~v~~i~vls~~-~~lP~~~~d  205 (435)
                      |++++|++|++| .+||++..|
T Consensus        81 l~~~~i~il~~~~~~~P~~~~d  102 (102)
T cd04320          81 LHIEKIYVVSEAAEPLPFQLED  102 (102)
T ss_pred             EEEEEEEEEecCCCCCCCCCCC
Confidence            999999999999 899997653

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.

>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS)

Probab=99.81  E-value=3.2e-19  Score=152.10  Aligned_cols=103  Identities=32%  Similarity=0.486  Sum_probs=89.0

Q ss_pred             eccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc
Q 013856           95 VGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV  174 (435)
Q Consensus        95 i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~  174 (435)
                      ++++.+...|+.|+|+|||+++|.+| +++|++|||+++.+|||+..+  ..++++++++..|+.||+|.|+|++...+.
T Consensus         3 ~~~l~~~~~g~~V~v~Gwv~~~R~~g-~~~Fi~LrD~~g~iQ~v~~~~--~~~~~~~~~~~~l~~es~V~V~G~v~~~~~   79 (108)
T cd04316           3 SAEITPELDGEEVTVAGWVHEIRDLG-GIKFVILRDREGIVQVTAPKK--KVDKELFKTVRKLSRESVISVTGTVKAEPK   79 (108)
T ss_pred             hhhCchhhCCCEEEEEEEEEeeeccC-CeEEEEEecCCeeEEEEEeCC--CCCHHHHHHHhCCCCcCEEEEEEEEEeCCC
Confidence            45666677899999999999999999 799999999999999999843  256788999999999999999999987543


Q ss_pred             cCCCCceeEEEEEeEEEEeecC-CCCCcccc
Q 013856          175 EIKGATQQVEVQIKKLYCVSRA-AKTPITIE  204 (435)
Q Consensus       175 ~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~  204 (435)
                      +    .+++||++++|.+|++| .+||++..
T Consensus        80 ~----~~~~Ei~~~~i~il~~~~~~~P~~~~  106 (108)
T cd04316          80 A----PNGVEIIPEEIEVLSEAKTPLPLDPT  106 (108)
T ss_pred             C----CCCEEEEEeEEEEEeCCCCCCCcCcC
Confidence            2    25799999999999999 89998743

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.

>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS)

Probab=99.81  E-value=4.4e-19  Score=149.99  Aligned_cols=103  Identities=29%  Similarity=0.346  Sum_probs=87.5

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV  185 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI  185 (435)
                      +|+|+|||+++|.+| |++|++|||+++.+|||+..+   .++++++.+..|+.||+|.|+|++...+.+    .+++||
T Consensus         1 ~V~v~Gwv~~~R~~g-k~~Fi~lrD~~g~iQ~v~~~~---~~~~~~~~~~~l~~~s~v~V~G~v~~~~~~----~~~~Ei   72 (103)
T cd04319           1 KVTLAGWVYRKREVG-KKAFIVLRDSTGIVQAVFSKD---LNEEAYREAKKVGIESSVIVEGAVKADPRA----PGGAEV   72 (103)
T ss_pred             CEEEEEEEEeEEcCC-CeEEEEEecCCeeEEEEEeCC---CCHHHHHHHhCCCCCCEEEEEEEEEECCCC----CCCEEE
Confidence            489999999999999 789999999999999999754   356778888899999999999999875432    246999


Q ss_pred             EEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCccccccccee
Q 013856          186 QIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVI  237 (435)
Q Consensus       186 ~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~L  237 (435)
                      ++++|.+|++|.++|++.+                     .+.++|+++|||
T Consensus        73 ~~~~i~vl~~a~~~pi~~~---------------------~~~~~~~~~rhL  103 (103)
T cd04319          73 HGEKLEIIQNVEFFPITED---------------------ASDEFLLDVRHL  103 (103)
T ss_pred             EEEEEEEEecCCCCccCCC---------------------CCHHHHhhccCC
Confidence            9999999999976887622                     267899999997

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.

>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs)

Probab=99.69  E-value=3.3e-16  Score=127.71  Aligned_cols=85  Identities=31%  Similarity=0.381  Sum_probs=72.8

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV  185 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI  185 (435)
                      .|+|+|||+++|.+| +++|++|||+++.+|++++.+.   ..+|++++..|+.||+|.|+|.+..++.+. ++++++||
T Consensus         1 ~V~i~Gwv~~~R~~g-~~~Fi~Lrd~~~~iQ~v~~~~~---~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~-~~~~~~El   75 (85)
T cd04100           1 EVTLAGWVHSRRDHG-GLIFIDLRDGSGIVQVVVNKEE---LGEFFEEAEKLRTESVVGVTGTVVKRPEGN-LATGEIEL   75 (85)
T ss_pred             CEEEEEEEehhccCC-CEEEEEEEeCCeeEEEEEECCc---ChHHHHHHhCCCCCCEEEEEeEEEECCCCC-CCCCCEEE
Confidence            389999999999999 6999999999999999998643   233788999999999999999998755333 45578999


Q ss_pred             EEeEEEEeec
Q 013856          186 QIKKLYCVSR  195 (435)
Q Consensus       186 ~v~~i~vls~  195 (435)
                      +++++++|++
T Consensus        76 ~~~~i~il~~   85 (85)
T cd04100          76 QAEELEVLSK   85 (85)
T ss_pred             EEeEEEEECC
Confidence            9999999975

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A

>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs

Probab=99.64  E-value=2.6e-15  Score=122.21  Aligned_cols=84  Identities=31%  Similarity=0.368  Sum_probs=70.0

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV  185 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI  185 (435)
                      .|+|+|||+++|.+| +++|++|||+++.+|+++..+..  + . ++++..|+.||+|.|+|++..++.+. ...+++||
T Consensus         1 ~V~v~Gwv~~~R~~g-~~~Fi~LrD~~~~iQ~v~~~~~~--~-~-~~~~~~l~~es~V~V~G~v~~~~~~~-~~~~~~Ei   74 (84)
T cd04323           1 RVKVFGWVHRLRSQK-KLMFLVLRDGTGFLQCVLSKKLV--T-E-FYDAKSLTQESSVEVTGEVKEDPRAK-QAPGGYEL   74 (84)
T ss_pred             CEEEEEEEEEEecCC-CcEEEEEEcCCeEEEEEEcCCcc--h-h-HHHHhcCCCcCEEEEEEEEEECCccc-CCCCCEEE
Confidence            489999999999998 89999999999999999975421  2 2 67888999999999999998765443 22367999


Q ss_pred             EEeEEEEeec
Q 013856          186 QIKKLYCVSR  195 (435)
Q Consensus       186 ~v~~i~vls~  195 (435)
                      +++++++||.
T Consensus        75 ~~~~i~vl~~   84 (84)
T cd04323          75 QVDYLEIIGE   84 (84)
T ss_pred             EEEEEEEEcC
Confidence            9999999974

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with

>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS)

Probab=99.58  E-value=2.4e-14  Score=117.27  Aligned_cols=85  Identities=20%  Similarity=0.361  Sum_probs=68.0

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCe-EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVS-TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE  184 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~-~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE  184 (435)
                      +|+|+|||+++|..+++++|++|||+++ .+||+++.+     .+.++.+..|+.||+|.|+|++...+......++++|
T Consensus         1 ~V~v~Gwv~~~R~~~~~~~Fi~LrD~~g~~iQvv~~~~-----~~~~~~~~~l~~~s~V~V~G~v~~~~~~~~~~~~~~E   75 (86)
T cd04321           1 KVTLNGWIDRKPRIVKKLSFADLRDPNGDIIQLVSTAK-----KDAFSLLKSITAESPVQVRGKLQLKEAKSSEKNDEWE   75 (86)
T ss_pred             CEEEEEeEeeEeCCCCceEEEEEECCCCCEEEEEECCC-----HHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCCCEE
Confidence            4899999999999544899999999999 699998643     1345666789999999999999865432223347899


Q ss_pred             EEEeEEEEeec
Q 013856          185 VQIKKLYCVSR  195 (435)
Q Consensus       185 I~v~~i~vls~  195 (435)
                      |++++|.+|++
T Consensus        76 i~~~~i~il~~   86 (86)
T cd04321          76 LVVDDIQTLNA   86 (86)
T ss_pred             EEEEEEEEecC
Confidence            99999999974

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for

>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS

Probab=99.57  E-value=2.8e-14  Score=115.53  Aligned_cols=79  Identities=23%  Similarity=0.325  Sum_probs=67.0

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCe--EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVS--TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQV  183 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~--~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~l  183 (435)
                      .|+|+|||+++|.+| +++|++|||+++  .|||+++.+..  .   ++++..|+.||+|.|+|.+..++.+    .+++
T Consensus         1 ~v~v~Gwv~~~R~~g-~~~Fi~LrD~s~~~~lQvv~~~~~~--~---~~~~~~l~~gs~V~v~G~v~~~~~~----~~~~   70 (82)
T cd04318           1 EVTVNGWVRSVRDSK-KISFIELNDGSCLKNLQVVVDKELT--N---FKEILKLSTGSSIRVEGVLVKSPGA----KQPF   70 (82)
T ss_pred             CEEEEEeEEEEEcCC-cEEEEEEECCCCccCEEEEEeCccc--C---HHHHhcCCCceEEEEEEEEEeCCCC----CCCE
Confidence            389999999999999 899999999987  59999986432  1   5677899999999999999875432    3689


Q ss_pred             EEEEeEEEEee
Q 013856          184 EVQIKKLYCVS  194 (435)
Q Consensus       184 EI~v~~i~vls  194 (435)
                      ||+++++.+++
T Consensus        71 El~~~~i~il~   81 (82)
T cd04318          71 ELQAEKIEVLG   81 (82)
T ss_pred             EEEEEEEEEec
Confidence            99999999986

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial

>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed

Probab=99.41  E-value=3.9e-13  Score=138.50  Aligned_cols=136  Identities=21%  Similarity=0.337  Sum_probs=101.8

Q ss_pred             CCCcccccccceeeeechhhhhHHHH-----HHHHHHHHHHHhhcCCeeeecCceeeecCC------CCCcce-eeeccC
Q 013856          225 RVNQDTRLNNRVIDIRTLANQGIFRI-----QSQVGNIFRQFLLSENFVEIHTPKLIAGSS------EGGSAV-FRLDYK  292 (435)
Q Consensus       225 ~~~~e~rl~~R~Ldlr~~~~~~i~~~-----rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~------egga~~-F~~~~~  292 (435)
                      ..++|+||++|    |.+..+++|.+     .+.|.+++|+||...||.||.||.|+....      .+|... ..+-++
T Consensus       179 ~~~~e~~l~~r----r~~~~~~~~~~g~~~~~s~Le~aIR~~f~~~GF~EV~TPtLt~ee~~e~~g~~~g~~i~~~my~i  254 (417)
T PRK09537        179 FKELESELVSR----RKNDLKQMYEEDREDYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRV  254 (417)
T ss_pred             hhhHHHHHHHh----cchhhHHhhccCCCCHHHHHHHHHHHHHHHCCCEEEECCeeecHHHHHHhCCCCcccchhhheee
Confidence            36789999999    88999999999     999999999999999999999999975321      112110 011124


Q ss_pred             CCceeec--cChHHHHhhhc----cCCCceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856          293 GQSACLA--QSPQLHKQMSI----CGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI  365 (435)
Q Consensus       293 ~~~~~L~--~Spql~lq~li----~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i  365 (435)
                      +...+|+  ..|.|+.....    ...--|+|+||+|||+|.. +.+|++||+|++++....+ .+.|++.++++++..+
T Consensus       255 deel~LRpsLtPsLlr~la~n~k~~~~P~RIFEIG~VFR~E~~-g~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~~L  333 (417)
T PRK09537        255 DKNFCLRPMLAPGLYNYLRKLDRILPDPIKIFEIGPCYRKESD-GKEHLEEFTMVNFCQMGSGCTRENLENIIDDFLKHL  333 (417)
T ss_pred             CCceEehhhhHHHHHHHHHhhhhcccCCeeEEEEeceEecCCC-CCCCcceEEEEEEEEeCCchHHHHHHHHHHHHHHHC
Confidence            6678999  68898875321    1112489999999999985 7889999999999987542 2566666666666554

>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain

Probab=99.16  E-value=5e-11  Score=111.02  Aligned_cols=115  Identities=23%  Similarity=0.318  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecC-CCC-C-c--ceee-eccCCCceeeccChHHHHhhhccC----CCceeEE
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGS-SEG-G-S--AVFR-LDYKGQSACLAQSPQLHKQMSICG----DFGRVFE  319 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~eg-g-a--~~F~-~~~~~~~~~L~~Spql~lq~li~~----g~~rVfe  319 (435)
                      +|+.+.+.+|++|...||.||.||.|+... .+. | .  .... .+..+...+||.|+...+...+..    .--|+||
T Consensus         1 ~~~~~~~~~r~~l~~~Gf~Ev~t~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~LR~s~~~~l~~~~~~n~~~~~~~lfe   80 (211)
T cd00768           1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHIRKLPLRLAE   80 (211)
T ss_pred             CHHHHHHHHHHHHHHcCCEEeEcceecHHHHHHHcCccHhheeeeecCCCCEEEECCCCcHHHHHHHHhhcccCCEEEEE
Confidence            367899999999999999999999997642 111 1 1  1122 234567889999999999877654    3469999


Q ss_pred             EecceecCcCCCC--ccccchhhheeeeccccc-----HHHHHHHHHHHHHHH
Q 013856          320 TGPVFRAEDSYTH--RHLCEFTGLDVEMEIKKH-----YSEVMDIVDCLFVTI  365 (435)
Q Consensus       320 Igp~FR~E~s~t~--rHl~EFt~lE~e~a~~~~-----~~d~m~~~e~l~~~i  365 (435)
                      ||+|||+|.+ +.  +|+.||+|+++++.....     +.+++.++++++..+
T Consensus        81 ig~vfr~e~~-~~~~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~~l  132 (211)
T cd00768          81 IGPAFRNEGG-RRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRAL  132 (211)
T ss_pred             EcceeecCCC-ccccccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHHHc
Confidence            9999999975 43  789999999999988642     567778888777655

Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.

>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands

Probab=98.99  E-value=6e-09  Score=81.62  Aligned_cols=75  Identities=27%  Similarity=0.415  Sum_probs=63.1

Q ss_pred             EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856          107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ  186 (435)
Q Consensus       107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~  186 (435)
                      |+|.|||.+++..|++++|+.|+|+++.|||++..      ..+..+...|..|++|.|.|.+....      .++++|.
T Consensus         1 V~v~G~V~~~~~~~~~~~~~~l~D~tg~i~~~~~~------~~~~~~~~~l~~g~~v~v~G~v~~~~------~~~~~l~   68 (75)
T PF01336_consen    1 VTVEGRVTSIRRSGGKIVFFTLEDGTGSIQVVFFN------EEYERFREKLKEGDIVRVRGKVKRYN------GGELELI   68 (75)
T ss_dssp             EEEEEEEEEEEEEETTEEEEEEEETTEEEEEEEET------HHHHHHHHTS-TTSEEEEEEEEEEET------TSSEEEE
T ss_pred             CEEEEEEEEEEcCCCCEEEEEEEECCccEEEEEcc------HHhhHHhhcCCCCeEEEEEEEEEEEC------CccEEEE
Confidence            78999999996556699999999999999999984      35667888999999999999997642      1259999


Q ss_pred             EeEEEEe
Q 013856          187 IKKLYCV  193 (435)
Q Consensus       187 v~~i~vl  193 (435)
                      +.++++|
T Consensus        69 ~~~i~~l   75 (75)
T PF01336_consen   69 VPKIEIL   75 (75)
T ss_dssp             EEEEEEE
T ss_pred             ECEEEEC
Confidence            9999876

The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....

>TIGR02367 PylS pyrrolysyl-tRNA synthetase

Probab=98.89  E-value=6.4e-09  Score=107.59  Aligned_cols=112  Identities=24%  Similarity=0.417  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecC------CCCCc----ceeeeccCCCceeec--cChHHHHhhhc----cCC
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGS------SEGGS----AVFRLDYKGQSACLA--QSPQLHKQMSI----CGD  313 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~------~egga----~~F~~~~~~~~~~L~--~Spql~lq~li----~~g  313 (435)
                      -.+.+.+.+|++|...||.||.||+|+...      .+++.    ..|.   ++...+||  +.|+|+.....    ...
T Consensus       241 ~~~~Led~IRevfvg~GFqEV~TPtLt~eE~~E~m~~~~g~eI~n~Iyk---~ee~lvLRPdLTPsLaR~La~N~~~l~~  317 (453)
T TIGR02367       241 YLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFR---VDKNFCLRPMLAPNLYNYLRKLDRALPD  317 (453)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCeecchHHHHhhcCccCCcccccceE---ecCceEecccCHHHHHHHHHHhhhhccC
Confidence            457889999999999999999999996211      11121    2343   35578999  88999864321    112


Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI  365 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i  365 (435)
                      --|+|+||+|||+|.. +.+|+.||+|++++....+ .+.|+..++.+++..+
T Consensus       318 PqKIFEIGkVFR~E~~-~~thlREF~QL~~eIaG~~atfaDlealL~e~Lr~L  369 (453)
T TIGR02367       318 PIKIFEIGPCYRKESD-GKEHLEEFTMLNFCQMGSGCTRENLEAIIKDFLDHL  369 (453)
T ss_pred             CeeEEEEcCeEecCCC-CCCCcCeEEEEEEEEECCCCCHHHHHHHHHHHHHHC
Confidence            3499999999999985 8899999999999987643 3667776666555543

PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.

>cd00496 PheRS_alpha_core Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain

Probab=98.53  E-value=2.3e-07  Score=88.76  Aligned_cols=110  Identities=16%  Similarity=0.256  Sum_probs=77.4

Q ss_pred             HHHHHHHHHhhcCCeeeecCceeeecCCCCC-c------------ceeeeccCCCceeeccC--hHHHHhhhccC--CCc
Q 013856          253 QVGNIFRQFLLSENFVEIHTPKLIAGSSEGG-S------------AVFRLDYKGQSACLAQS--PQLHKQMSICG--DFG  315 (435)
Q Consensus       253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~~egg-a------------~~F~~~~~~~~~~L~~S--pql~lq~li~~--g~~  315 (435)
                      .+.+.+|++|...||.||.|+.+++...+-. .            .++.+..- .-.+||.|  |.|..  .++.  .--
T Consensus         5 ~~~~~ir~~L~~~Gf~Ev~tys~~~~~~~~~~~~~~~~~~~~~~~~~v~l~NP-~~~~LR~sLlp~LL~--~l~~N~~~~   81 (218)
T cd00496           5 KVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYINDP-ARLLLRTHTSAVQAR--ALAKLKPPI   81 (218)
T ss_pred             HHHHHHHHHHHHCCCEEEeCCcccccchhhhhcCCCCCCcccccCceEEECCC-ceEEEeccCcHHHHH--HHHhcCCCe
Confidence            4567789999999999999999976521100 0            11222110 03567744  55543  3343  456


Q ss_pred             eeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHHh
Q 013856          316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTIF  366 (435)
Q Consensus       316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i~  366 (435)
                      |+||||+|||++.+ +.+|+|||++|.+.++... ++.|++.+++.++..+-
T Consensus        82 ~lFEiG~Vf~~~~~-~~~~~~E~~~l~~~~~g~~~df~dlkg~ve~ll~~l~  132 (218)
T cd00496          82 RIFSIGRVYRNDEI-DATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKELF  132 (218)
T ss_pred             eEEEEcCeEECCCC-CCCcCCccEEEEEEEECCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999874 5578999999999999861 38899999999997654

PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer.

>PF01409 tRNA-synt_2d: tRNA synthetases class II core domain (F); InterPro: IPR002319 The aminoacyl-tRNA synthetases (6

Probab=98.45  E-value=6.9e-07  Score=87.13  Aligned_cols=116  Identities=19%  Similarity=0.323  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecC--------C-CCCc----ceeeec--cC--CCceeecc--ChHHHHhh-hcc
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGS--------S-EGGS----AVFRLD--YK--GQSACLAQ--SPQLHKQM-SIC  311 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~--------~-egga----~~F~~~--~~--~~~~~L~~--Spql~lq~-li~  311 (435)
                      +.+++.+|++|...||.||.+|.+.+..        . +.-+    +.|-+.  +-  .....||.  ||-+..-+ .-.
T Consensus        20 ~~~~~~i~~~~~~~Gf~e~~~~~v~s~~~nFD~Ln~p~dHpaR~~~Dtfyi~~p~~~~~~~~vLRThts~~~~~~l~~~~   99 (247)
T PF01409_consen   20 TKFIREIRDIFVGMGFQEVEGPEVESEFYNFDALNIPQDHPARDMQDTFYISNPYSAEEDYSVLRTHTSPGQLRTLNKHR   99 (247)
T ss_dssp             HHHHHHHHHHHHCTTSEEESTTSEEEHHHHTGGGTSTTTSCGGCGTTSEBSCSSSBCECSSEEE-SSTHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHHHCCCeEeeCCeEEeeHHHHHhhCcCCCccccccccceeeeccccccchhhhhhhhhhHHHHHHHHHhc
Confidence            4567889999999999999999996521        1 1111    124331  11  56677774  55544332 111


Q ss_pred             CCCceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhHH
Q 013856          312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFDS  368 (435)
Q Consensus       312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~~  368 (435)
                      ..=-|+|+||+|||+|.. +.+|+|+|.|+|.-+... -++.++..+++.+++++|..
T Consensus       100 ~~p~kif~iG~VyR~D~~-D~th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~lfG~  156 (247)
T PF01409_consen  100 PPPIKIFEIGKVYRRDEI-DATHLPEFHQLEGLVVDKNVTFEDLKGTLEELLKELFGI  156 (247)
T ss_dssp             HSSEEEEEEEEEESSSCS-BSSBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHHHTT
T ss_pred             CCCeEEEecCceEecCCc-ccccCccceeEeeEEEecccchhHHHHHHHHHHHHHhhc
Confidence            234699999999999995 889999999999976553 14888999999888888753

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases [].; GO: 0000049 tRNA binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 3TUP_A 3HFV_A 3CMQ_A 3TEG_A 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B ....

>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain

Probab=98.37  E-value=1.6e-06  Score=84.87  Aligned_cols=101  Identities=19%  Similarity=0.295  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-----CCcceeee-ccCCCceeec--cChHHHHhhh---cc-CC
Q 013856          248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-----GGSAVFRL-DYKGQSACLA--QSPQLHKQMS---IC-GD  313 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-----gga~~F~~-~~~~~~~~L~--~Spql~lq~l---i~-~g  313 (435)
                      .+++..|.+.+++.|.++||.||.||.|.....  .     ...+.|++ +--|+.+.|+  ..|++..-.+   .. ..
T Consensus         2 ~~~~~~l~~~l~~~f~~~Gy~~v~tP~le~~~~~~~~~~~~~~~~~~~~~d~~g~~l~LRpd~T~~iaR~~a~~~~~~~~   81 (261)
T cd00773           2 AALRRYIEDTLREVFERYGYEEIDTPVFEYTELFLRKSGDEVSKEMYRFKDKGGRDLALRPDLTAPVARAVAENLLSLPL   81 (261)
T ss_pred             hHHHHHHHHHHHHHHHHcCCEEeeccceeeHHHhcccccccccceEEEEECCCCCEEEeCCCCcHHHHHHHHhcCccCCC
Confidence            367889999999999999999999999977542  1     12236765 4457788888  3344432211   11 12


Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeecccc
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK  349 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~  349 (435)
                      --|+|++|+|||.|.+ ...|..||+|+++|+-..+
T Consensus        82 p~k~~y~g~vfR~e~~-~~g~~re~~Q~g~Eiig~~  116 (261)
T cd00773          82 PLKLYYIGPVFRYERP-QKGRYREFYQVGVEIIGSD  116 (261)
T ss_pred             CeEEEEEcCEEecCCC-CCCCccceEEeceeeeCCC
Confidence            3499999999999985 4668899999999987654

HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.

>PF00587 tRNA-synt_2b: tRNA synthetase class II core domain (G, H, P, S and T) This Prosite entry contains all class II enzymes

Probab=98.35  E-value=1.1e-06  Score=80.59  Aligned_cols=116  Identities=20%  Similarity=0.336  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHHhh-cCCeeeecCceeeecCC---CC-----CcceeeeccCC-CceeeccChHHH-----Hhhhcc--C
Q 013856          250 IQSQVGNIFRQFLL-SENFVEIHTPKLIAGSS---EG-----GSAVFRLDYKG-QSACLAQSPQLH-----KQMSIC--G  312 (435)
Q Consensus       250 ~rs~i~~~~R~fl~-~~gF~EV~TP~l~~~~~---eg-----ga~~F~~~~~~-~~~~L~~Spql~-----lq~li~--~  312 (435)
                      ++.+|++.+++.+. +.||.||.||.|.+...   -|     ....|.+.--+ ..++|+-+.+..     ......  .
T Consensus         1 l~~~l~~~~~~~~~~~~G~~ev~~P~l~~~~~~~~sg~~~~~~~~~~~~~~~~~~~~~L~pt~~~~~~~~~~~~~~~~~~   80 (173)
T PF00587_consen    1 LRNALERFIREEFVLKFGFQEVDTPILIPSEVWEKSGHWDNFSDEMFKVKDRGDEEYCLRPTSEPGIYSLFKNEIRSSYR   80 (173)
T ss_dssp             HHHHHHHHHHHHHHHHTTEEEEB--SEEEHHHHHHHSHHHHHGGGSEEEEETTTEEEEE-SSSHHHHHHHHHHHEEBHGG
T ss_pred             CHHHHHHHHHHHhHHhcCCEEEECCeEEehHHhhhccccccccCCeeeeeecccccEEeccccccceeeeecceeeeccc
Confidence            57899999999999 99999999999987541   11     12256664433 568998666433     222222  1


Q ss_pred             CC-ceeEEEecceecCc--CCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhH
Q 013856          313 DF-GRVFETGPVFRAED--SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       313 g~-~rVfeIgp~FR~E~--s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~  367 (435)
                      .+ =++|+||+|||+|.  ..+...+-||+|.|++....+  ++..+..++++..+..
T Consensus        81 ~LP~~~~~~g~~fR~E~~~~~gl~R~reF~~~e~~~f~~~--~~~~~~~~~~~~~~~~  136 (173)
T PF00587_consen   81 DLPLKLYQIGTCFRNEARPTRGLFRLREFTMDEMHIFCTP--EQSEEEFEELLELYKE  136 (173)
T ss_dssp             GSSEEEEEEEEEEBSSSSSBSTTTS-SEEEEEEEEEEESS--HHHHHHHHHHHHHHHH
T ss_pred             cCCeEEeecccccccccccccccceeeEeeeeceEEEeCC--cccHHHHHHHHHHHHH
Confidence            23 38999999999993  235778889999999887654  6777776666654443

seryl tRNA synthetase structure; InterPro: IPR002314 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain includes the glycine, histidine, proline, threonine and serine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3UH0_A 3UGT_C 3UGQ_A 1B76_B 1GGM_B 1ATI_A 1ADY_C 1ADJ_C 2I4O_A 2I4M_B ....

>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated

Probab=98.26  E-value=4.2e-06  Score=84.76  Aligned_cols=114  Identities=14%  Similarity=0.186  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecC--------C-CCCcc-eeeeccCCCceeec--cChHHHHhhhccCCC-ceeE
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGS--------S-EGGSA-VFRLDYKGQSACLA--QSPQLHKQMSICGDF-GRVF  318 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~--------~-egga~-~F~~~~~~~~~~L~--~Spql~lq~li~~g~-~rVf  318 (435)
                      +.+...||++|...||.|+.+|.|.+..        + +..|. .-.+-|.+....||  .||-+-.-|.- ... -|+|
T Consensus       111 ~~~~~~Ir~if~~mGF~ev~gpeIes~~~NFdaLn~P~dHPaR~~~DTfyI~~~~lLRThTSp~qir~L~~-~~~Pirif  189 (339)
T PRK00488        111 TQTIEEIEDIFVGMGFEVAEGPEIETDYYNFEALNIPKDHPARDMQDTFYIDDGLLLRTHTSPVQIRTMEK-QKPPIRII  189 (339)
T ss_pred             HHHHHHHHHHHHhCCCEEEeCCccccHHHHHHHhCCCCCCcccccCceEEEcCCceeeccCcHHHHHHHHh-cCCCeEEE
Confidence            5678899999999999999999986411        1 11121 11122335556666  67765444332 222 3899


Q ss_pred             EEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856          319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~  367 (435)
                      ++|+|||++. .+.+|.|+|.|+|.-+... -++.++..+++.+++.+|.
T Consensus       190 ~~G~VyR~D~-~DatH~~~FhQleglvvd~~vtf~dLK~~L~~fl~~~fg  238 (339)
T PRK00488        190 APGRVYRNDS-DDATHSPMFHQVEGLVVDKNISFADLKGTLEDFLKAFFG  238 (339)
T ss_pred             EeeeEEEcCC-CCcccCcceeeEEEEEEeCCCCHHHHHHHHHHHHHHHcC
Confidence            9999999998 4889999999999755442 2488999999999999986

>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit

Probab=98.20  E-value=6.8e-06  Score=82.21  Aligned_cols=131  Identities=18%  Similarity=0.265  Sum_probs=84.8

Q ss_pred             ccccceeeeechhh---hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC--CC---CCc--------ceeeeccCCC
Q 013856          231 RLNNRVIDIRTLAN---QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS--SE---GGS--------AVFRLDYKGQ  294 (435)
Q Consensus       231 rl~~R~Ldlr~~~~---~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~e---gga--------~~F~~~~~~~  294 (435)
                      ++..+.+|+..|..   .....-...+.+.+|++|...||.|+.||.+.+..  .+   -..        ++|.+.   .
T Consensus        51 ~~~~~~~d~tlp~~~~~~g~~~p~~~~~~~ir~~l~~~Gf~Ev~~~~~~s~~~~fd~l~~~~~hpar~~~d~~~l~---d  127 (294)
T TIGR00468        51 KLKFETYDVTLPGTKIYPGSLHPLTRVIDEIRDIFLGLGFTEEKGPEVETDFWNFDALNIPQDHPARDMQDTFYIK---D  127 (294)
T ss_pred             hhhhccCcccCCCCCCCCCCcCHHHHHHHHHHHHHHHCCCEEeeCCceeccHHHHHHhCCCCCCcchhhccceeec---C
Confidence            34445555554321   11223345667889999999999999999997641  00   000        123332   3


Q ss_pred             ceeeccC--hHHHHhhhccCCC---ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856          295 SACLAQS--PQLHKQMSICGDF---GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       295 ~~~L~~S--pql~lq~li~~g~---~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~  367 (435)
                      ..+||.|  |-+-.  .+..+.   -|+||||+|||++.. +.+|+|||.+|+.-+... -++.|+..+++.++..+.-
T Consensus       128 ~~vLRtsl~p~ll~--~l~~N~~~pirlFEiGrVfr~d~~-d~~~~pef~ql~gl~~~~~~~f~dLKg~le~ll~~l~~  203 (294)
T TIGR00468       128 RLLLRTHTTAVQLR--TMEENEKPPIRIFSPGRVFRNDTV-DATHLPEFHQVEGLVIDKNVSFTNLKGFLEEFLKKMFG  203 (294)
T ss_pred             CcceecccHHHHHH--HHHhcCCCCceEEEecceEEcCCC-CCccCChhhEEEEEEECCCCCHHHHHHHHHHHHHHhCC
Confidence            4566644  43332  233344   499999999999874 678999999999876542 1488999999998877653

Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment.

>cd00670 Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain

Probab=98.17  E-value=6e-06  Score=78.88  Aligned_cols=102  Identities=17%  Similarity=0.185  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C-CC-c-----ceeeeccC-----CCceeeccChH--H---HHhhh
Q 013856          248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E-GG-S-----AVFRLDYK-----GQSACLAQSPQ--L---HKQMS  309 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e-gg-a-----~~F~~~~~-----~~~~~L~~Spq--l---~lq~l  309 (435)
                      .+++..|.+.+++.|...||.||.||.|..... + +| .     ..|.+..-     |..++|+-...  +   +....
T Consensus         2 ~~~~~~l~~~~~~~~~~~G~~ei~~P~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LrP~~~~~i~~~~~~~~   81 (235)
T cd00670           2 TALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTFEDKGRELRDTDLVLRPAACEPIYQIFSGEI   81 (235)
T ss_pred             HHHHHHHHHHHHHHHHHcCCEEEECCeEcCHHHHhhcCCcccchhhcCeeccCcccccCCeEEEecCCCHHHHHHHhccC
Confidence            357889999999999999999999999986541 1 11 1     24555332     46788884432  2   22221


Q ss_pred             cc-CCC-ceeEEEecceecCcCC--CCccccchhhheeeecccc
Q 013856          310 IC-GDF-GRVFETGPVFRAEDSY--THRHLCEFTGLDVEMEIKK  349 (435)
Q Consensus       310 i~-~g~-~rVfeIgp~FR~E~s~--t~rHl~EFt~lE~e~a~~~  349 (435)
                      .. ..+ -|+|++|+|||+|.+.  ...-+-||+|.|++.-..+
T Consensus        82 ~~~~~lP~r~~~~g~~fR~E~~~~~gl~R~reF~q~e~~~~~~~  125 (235)
T cd00670          82 LSYRALPLRLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEP  125 (235)
T ss_pred             ccchhcCeeeeeecccccCCCCCCCCChhheeeeeceEEEEcCH
Confidence            11 123 3899999999999863  1334579999999987643

This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. These enzymes belong to class II aminoacyl-tRNA synthetases (aaRS) based upon their structure and the presence of three characteristic sequence motifs in the core domain. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ and the accessory subunit of mitochondrial polymerase gamma (Pol gamma b) . Most class II tRNA synthetases are dimers, with this subgroup consisting of mostly homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.

>PRK00037 hisS histidyl-tRNA synthetase; Reviewed

Probab=98.14  E-value=1.1e-05  Score=83.89  Aligned_cols=119  Identities=18%  Similarity=0.231  Sum_probs=81.3

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC----CC------Ccceeee-ccCCCceeec--cChHHHHhhhcc
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS----EG------GSAVFRL-DYKGQSACLA--QSPQLHKQMSIC  311 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~----eg------ga~~F~~-~~~~~~~~L~--~Spql~lq~li~  311 (435)
                      ..-.+.+..+...+|+.|.+.||.||.||++.....    .|      ..+.|.+ +--|+.+.|+  ..|++..-.+--
T Consensus        15 p~~~~~~~~i~~~i~~~~~~~Gy~ei~tP~le~~~~~~~~~g~~~~~~~~~~~~~~d~~g~~l~LRpd~T~~~ar~~~~~   94 (412)
T PRK00037         15 PEESAKWQYVEDTIREVFERYGFSEIRTPIFEYTELFKRKVGEETDIVEKEMYTFQDKGGRSLTLRPEGTAPVVRAVIEH   94 (412)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCeEeeccccchHHHhccccCcccccccceeEEEEcCCCCEEEecCCCcHHHHHHHHhC
Confidence            355678888999999999999999999999955321    11      2335664 3357788887  345555432111


Q ss_pred             C-CCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          312 G-DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       312 ~-g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      . .--|+|++|+|||+|.+ ...|.-||+|+++|+-..++-   -|++.++.+++..
T Consensus        95 ~~~p~r~~~~g~vfR~e~~-~~gr~ref~Q~g~ei~g~~~~~~d~E~i~~~~~~l~~  150 (412)
T PRK00037         95 KLQPFKLYYIGPMFRYERP-QKGRYRQFHQFGVEVIGSDSPLADAEVIALAADILKA  150 (412)
T ss_pred             CCCCeEEEEEcCccccCCC-CCCcccceEEcCeeeeCCCCcchhHHHHHHHHHHHHH
Confidence            1 33599999999999986 445778999999997554321   4566666555543

>TIGR00442 hisS histidyl-tRNA synthetase

Probab=98.07  E-value=1.8e-05  Score=82.08  Aligned_cols=118  Identities=17%  Similarity=0.214  Sum_probs=79.5

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCC-------cceeee-ccCCCceeec--cChHHHHhhhc--
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGG-------SAVFRL-DYKGQSACLA--QSPQLHKQMSI--  310 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egg-------a~~F~~-~~~~~~~~L~--~Spql~lq~li--  310 (435)
                      .-..++..+...+++.|.++||.||.||++.....   .+|       .+.|.+ +.-|+.+.||  ..|++....+-  
T Consensus        12 ~~~~~~~~i~~~i~~~f~~~Gy~~i~~P~le~~~~~~~~~g~~~~~~~~~~~~~~d~~g~~l~LRpD~T~~iaR~~~~~~   91 (397)
T TIGR00442        12 EEMIKWQYIEETIREVFELYGFKEIRTPIFEYTELFARKVGEETDIVEKEMYTFKDKGGRSLTLRPEGTAPVARAVIENK   91 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeEecCcccchHHHhhhccCccccccccceEEEECCCCCEEeecCCCcHHHHHHHHhcc
Confidence            45678899999999999999999999999965331   111       235664 3467777787  44454432111  


Q ss_pred             -cCCC-ceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          311 -CGDF-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       311 -~~g~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                       ...+ -|.|++|+|||.|.+. ..|.-||+|+++|.-..++.   -|++.++.+.+..
T Consensus        92 ~~~~~p~r~~y~g~vfR~e~~~-~gr~ref~Q~g~eiig~~~~~~d~E~i~l~~e~l~~  149 (397)
T TIGR00442        92 LLLPKPFKLYYIGPMFRYERPQ-KGRYRQFHQFGVEVIGSDSPLADAEIIALAAEILKE  149 (397)
T ss_pred             cccCCCeEEEEEcCeecCCCCC-CCcccceEEcCeeeeCCCCHHHHHHHHHHHHHHHHH
Confidence             1112 4999999999999864 44668999999998665432   2455555555543

This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.

>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional

Probab=97.98  E-value=3.3e-05  Score=82.54  Aligned_cols=117  Identities=17%  Similarity=0.235  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeec-----C-----CCC---Ccceeeecc----------------------
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAG-----S-----SEG---GSAVFRLDY----------------------  291 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~-----~-----~eg---ga~~F~~~~----------------------  291 (435)
                      -......+++.||+.|...||.||.||.+-+.     +     -.+   -.+.|.+++                      
T Consensus       231 ~~~~~~~~~~~~~~~f~~~Gf~e~~~p~vE~~~~nfd~lf~p~~hpaR~~~dtf~~~~~~~~~~~~~~~~~v~~~he~g~  310 (489)
T PRK04172        231 KKHPYREFIDEVRDILVEMGFEEMKGPLVETEFWNFDALFQPQDHPAREMQDTFYLKYPGIGDLPEELVERVKEVHEHGG  310 (489)
T ss_pred             CCChHHHHHHHHHHHHHHCCCEEeeCCeeeecCcccccccCCCCCCCCCccceEEECCcccccCcHHHHHHHHHHHhccC
Confidence            34457788999999999999999999999743     0     000   001222110                      


Q ss_pred             --------------CCCceeeccC--hHHHHhhhccC--CCceeEEEecceecCcCCCCccccchhhheeeecccc-cHH
Q 013856          292 --------------KGQSACLAQS--PQLHKQMSICG--DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYS  352 (435)
Q Consensus       292 --------------~~~~~~L~~S--pql~lq~li~~--g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~  352 (435)
                                    .++...||..  |-+-.- +..-  .=-|+|+||+|||+|.. +..|++||++|+..+...+ ++.
T Consensus       311 ~~~~~~~~y~~~~~~~~~~~LR~~~T~~~~r~-l~~~~~~p~rlFeiGrVFR~e~~-d~~~l~Ef~ql~~~i~G~~~~f~  388 (489)
T PRK04172        311 DTGSRGWGYKWDEDIAKRLVLRTHTTALSARY-LASRPEPPQKYFSIGRVFRPDTI-DATHLPEFYQLEGIVMGEDVSFR  388 (489)
T ss_pred             CCCCccccCCcchhhhhccccccCChHHHHHH-HHhcCCCCeEEEEecceEcCCCC-CcccCCchheEEEEEEeCCCCHH
Confidence                          0233455522  222111 1111  12499999999999985 6688999999999988742 367


Q ss_pred             HHHHHHHHHHHHH
Q 013856          353 EVMDIVDCLFVTI  365 (435)
Q Consensus       353 d~m~~~e~l~~~i  365 (435)
                      +++.++++++..+
T Consensus       389 elkg~l~~ll~~l  401 (489)
T PRK04172        389 DLLGILKEFYKRL  401 (489)
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888888765

>cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain

Probab=97.96  E-value=1.5e-05  Score=78.22  Aligned_cols=117  Identities=17%  Similarity=0.108  Sum_probs=80.9

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC------CcceeeeccCC-----CceeeccChHH-----HH
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG------GSAVFRLDYKG-----QSACLAQSPQL-----HK  306 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg------ga~~F~~~~~~-----~~~~L~~Spql-----~l  306 (435)
                      .-.+++..|.+.+++.+.+.||.||.||.|.....   ++      +.+.|.+.--+     .+++|+-..+-     |.
T Consensus        30 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~sg~~~~f~~~~f~~~~~~~~~~~~~~~L~Pt~e~~~~~~~~  109 (261)
T cd00778          30 YGYAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVTHGGLEELEEPLALRPTSETAIYPMFS  109 (261)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHhhhhhcchhhcCcceEEEEecCCcccCCcEEEcCCCCHHHHHHHH
Confidence            45688899999999999999999999999977542   12      22356664322     36888876432     22


Q ss_pred             hhhcc-CCC-ceeEEEecceecCcCCC--CccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          307 QMSIC-GDF-GRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       307 q~li~-~g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      ..... .++ =|+|+||+|||+|.+.+  .-=.-||+|.|.+..+++ .++..+..++++.
T Consensus       110 ~~i~s~r~LPlr~~~~~~~fR~E~~~~~Gl~R~reF~~~d~h~~~~~-~e~~~~~~~~~~~  169 (261)
T cd00778         110 KWIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHAT-EEEAEEEVLQILD  169 (261)
T ss_pred             hhccchhhcCHHHHhhhhhccCCCCCCCceeEeeeeeeeceeeccCC-HHHHHHHHHHHHH
Confidence            22111 122 28999999999998632  223459999999988876 6777776666654

ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.

>cd00772 ProRS_core Prolyl-tRNA synthetase (ProRS) class II core catalytic domain

Probab=97.96  E-value=5.1e-05  Score=74.74  Aligned_cols=114  Identities=15%  Similarity=0.098  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C--C-----C-cceeeeccCC-----CceeeccChHH-----HHh
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E--G-----G-SAVFRLDYKG-----QSACLAQSPQL-----HKQ  307 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e--g-----g-a~~F~~~~~~-----~~~~L~~Spql-----~lq  307 (435)
                      -.+++..|.+.+++.+.+.||.||.||.|..... .  |     + .+.|.+..-+     .+++|+-..+-     |..
T Consensus        31 g~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~g~~~~~~~~e~~~~~~~~~~~~~~~l~LrPt~e~~~~~~~~~  110 (264)
T cd00772          31 AKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKEAEHDEGFSKELAVFKDAGDEELEEDFALRPTLEENIGEIAAK  110 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCeEEECCeeccHHHHhhcCCcccccCccceEEEeCCCCccCceEEECCCCCHHHHHHHHh
Confidence            4467889999999999999999999999976432 1  1     1 2345553222     67888865543     222


Q ss_pred             hhcc-CCCc-eeEEEecceecCcCCCCc---cccchhhheeeecccccHHHHHHHHHHHH
Q 013856          308 MSIC-GDFG-RVFETGPVFRAEDSYTHR---HLCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       308 ~li~-~g~~-rVfeIgp~FR~E~s~t~r---Hl~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                      .... ..+. |+|++++|||.|.. +.+   =.-||+|.|.+....+ .++....++.++
T Consensus       111 ~i~s~~~LPlrl~~~~~~fR~E~r-~~~Gl~R~reF~~~e~~~~~~~-~e~a~~e~~~~~  168 (264)
T cd00772         111 FIKSWKDLPQHLNQIGNKFRDEIR-PRFGFLRAREFIMKDGHSAHAD-AEEADEEFLNML  168 (264)
T ss_pred             hhhhhhccCeeEEEEeCeEeCcCC-CCCCcceeeEEEEeeeEEecCC-HHHHHHHHHHHH
Confidence            2211 1333 99999999999953 322   2469999999876665 667777666666

ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.

>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional

Probab=97.94  E-value=2.9e-05  Score=82.26  Aligned_cols=51  Identities=22%  Similarity=0.333  Sum_probs=39.8

Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI  365 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i  365 (435)
                      --|+|.||+|||+|.. +.+|+|||+|+|..+...+ ...+|+.++.+++..+
T Consensus       357 P~k~fsigrVfR~d~~-DatH~~eFhQ~Eg~vi~~~~s~~~L~~~l~~f~~~l  408 (494)
T PTZ00326        357 PKKYFSIDRVFRNETL-DATHLAEFHQVEGFVIDRNLTLGDLIGTIREFFRRI  408 (494)
T ss_pred             CceEEecCCEecCCCC-CCCcCceeEEEEEEEEeCCCCHHHHHHHHHHHHHhc
Confidence            3599999999999995 8999999999999876543 2456666666665554

>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain

Probab=97.90  E-value=3.6e-05  Score=81.26  Aligned_cols=50  Identities=22%  Similarity=0.412  Sum_probs=40.2

Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      -|+|+||+|||+|.. |.+|+|||.|+|.-+.-. =++.+++.++..++..+
T Consensus       343 ~k~fsigrVfR~d~i-DatH~~eFhQ~EG~vvd~~~t~~~L~g~l~~f~~~l  393 (492)
T PLN02853        343 KRYFSIDRVFRNEAV-DRTHLAEFHQVEGLVCDRGLTLGDLIGVLEDFFSRL  393 (492)
T ss_pred             cEEEeccceecCCCC-CcccCccceeEEEEEEeCCCCHHHHHHHHHHHHHHc
Confidence            499999999999995 899999999999754422 13778888888777665

>cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain

Probab=97.87  E-value=6.2e-05  Score=75.35  Aligned_cols=101  Identities=20%  Similarity=0.245  Sum_probs=68.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C---CC-CcceeeeccCCCceeeccChH-----HHHhhhcc-
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S---EG-GSAVFRLDYKGQSACLAQSPQ-----LHKQMSIC-  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~---eg-ga~~F~~~~~~~~~~L~~Spq-----l~lq~li~-  311 (435)
                      .-.+++..|.+.+++.+.+.||.||.||.|....    +   ++ ..+.|.++--|..++|+-...     +|...... 
T Consensus        28 ~g~~l~~~l~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sg~~~~~~~~my~~~~~~~~l~LRP~~~~~~~~~~~~~~~s~  107 (298)
T cd00771          28 KGAIIRNELEDFLRELQRKRGYQEVETPIIYNKELWETSGHWDHYRENMFPFEEEDEEYGLKPMNCPGHCLIFKSKPRSY  107 (298)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCeecCHHHHhhCCCccccccCceEeccCCceEEEcccCCHHHHHHHHhhccch
Confidence            3457788999999999999999999999997643    1   11 123677754456788874332     22222111 


Q ss_pred             CCCc-eeEEEecceecCcCCCCc---cccchhhheeeec
Q 013856          312 GDFG-RVFETGPVFRAEDSYTHR---HLCEFTGLDVEME  346 (435)
Q Consensus       312 ~g~~-rVfeIgp~FR~E~s~t~r---Hl~EFt~lE~e~a  346 (435)
                      ..+. |+|++|+|||+|.+.+.+   =.-||+|.|.+.-
T Consensus       108 ~~LPlr~~~~g~vfR~E~~~~~~Gl~R~reF~q~e~~i~  146 (298)
T cd00771         108 RDLPLRLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIF  146 (298)
T ss_pred             hhCCeEEEEecCcccCCCCCCCCCccccccEEECCEEEE
Confidence            1333 999999999999863211   2359999999875

ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.

>cd00779 ProRS_core_prok Prolyl-tRNA synthetase (ProRS) class II core catalytic domain

Probab=97.86  E-value=4.8e-05  Score=74.50  Aligned_cols=116  Identities=19%  Similarity=0.184  Sum_probs=76.1

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-C-----Ccceeeec-cCCCceeeccChH-----HHHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-G-----GSAVFRLD-YKGQSACLAQSPQ-----LHKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-g-----ga~~F~~~-~~~~~~~L~~Spq-----l~lq~li~  311 (435)
                      .-.+++..|.+.+++.|...||.||.||+|.....  . |     +.+.|.+. --+.+++|+...+     ++......
T Consensus        29 ~g~~l~~~i~~~~~~~~~~~G~~ei~~P~l~~~~~~~~sg~~~~~~~emy~~~d~~~~~l~LrPt~e~~~t~~~~~~i~s  108 (255)
T cd00779          29 LGLRVLKKIENIIREEMNKIGAQEILMPILQPAELWKESGRWDAYGPELLRLKDRHGKEFLLGPTHEEVITDLVANEIKS  108 (255)
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCccccCcccEEEecCCCCeEEEecCCcHHHHHHHHhcccc
Confidence            34567889999999999999999999999976321  1 1     22357763 3457889986532     33332211


Q ss_pred             -CCCc-eeEEEecceecCcCCCC--ccccchhhheeeecccccHHHHHHHHHHHH
Q 013856          312 -GDFG-RVFETGPVFRAEDSYTH--RHLCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       312 -~g~~-rVfeIgp~FR~E~s~t~--rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                       ..+. |+|++|+|||+|.....  -=.-||+|+|.+....+ -.+.....++++
T Consensus       109 ~~~LPlr~~~~~~~FR~E~~~~~Gl~R~reF~q~e~~~~~~~-~~~a~~~~~~i~  162 (255)
T cd00779         109 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDID-EESLEETYEKMY  162 (255)
T ss_pred             HhhCCHHHHhCcceecCCCCCCCceeeeeeEeHhhheeccCC-HHHHHHHHHHHH
Confidence             1333 99999999999942111  03469999999988765 345544444443

ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from prokaryotes and from the mitochondria of eukaryotes.

>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II

Probab=97.86  E-value=9.1e-05  Score=80.50  Aligned_cols=123  Identities=20%  Similarity=0.226  Sum_probs=83.1

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C------CCcceeeec-cCCCceeeccCh-----HHHHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E------GGSAVFRLD-YKGQSACLAQSP-----QLHKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e------gga~~F~~~-~~~~~~~L~~Sp-----ql~lq~li~  311 (435)
                      .-.+++..|.+.+|+.|...||.||.||.|.+...  +      -|.+.|.+. -.|..++|+-..     .++...+..
T Consensus        45 ~g~rv~~~I~~~i~~~~~~~G~~ei~~P~l~~~el~~~sg~~~~~~~emf~~~dr~~~~l~LrPT~Ee~~t~~~~~~i~s  124 (568)
T TIGR00409        45 LGLRVLKKVENIVREEMNKDGAIEVLLPALQPAELWQESGRWDTYGPELLRLKDRKGREFVLGPTHEEVITDLARNEIKS  124 (568)
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHhhcCCCCccchhcEEEecCCCCEEEEcCCCcHHHHHHHHHHHhh
Confidence            45678899999999999999999999999987431  1      134578873 456788888642     223322211


Q ss_pred             -CCCc-eeEEEecceecCc-CC-CCccccchhhheeeecccccHHHHHHHHHHHH---HHHhHHh
Q 013856          312 -GDFG-RVFETGPVFRAED-SY-THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLF---VTIFDSL  369 (435)
Q Consensus       312 -~g~~-rVfeIgp~FR~E~-s~-t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~---~~i~~~~  369 (435)
                       ..+. |+|+|+++||.|. .. +.-=.-||+|.|.|.-..+ ..++....+.++   ..||+.+
T Consensus       125 yr~LPlrlyqi~~~fR~E~rpr~Gl~R~REF~~~d~~~f~~~-~~~a~~e~~~~~~~y~~if~~L  188 (568)
T TIGR00409       125 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHSD-EESLDATYQKMYQAYSNIFSRL  188 (568)
T ss_pred             ccccCeEEEEeeCEeeCCCCCCCCccccccEEEEEEEEEeCC-hHHHHHHHHHHHHHHHHHHHHh
Confidence             1343 9999999999994 21 1112359999999998775 455544555443   5566654

Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.

>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]

Probab=97.84  E-value=6.1e-05  Score=76.07  Aligned_cols=115  Identities=15%  Similarity=0.241  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCCC----------Ccc-eeeeccCCCc---eeec--cChHHHHhhhccCC-C
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEG----------GSA-VFRLDYKGQS---ACLA--QSPQLHKQMSICGD-F  314 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~eg----------ga~-~F~~~~~~~~---~~L~--~Spql~lq~li~~g-~  314 (435)
                      ..++..++++|.+.||.++..|-+.+ .--.          -|. .--+-|++..   .-||  +||=--..|.--.. =
T Consensus       114 ~~~~e~i~~iF~~mGF~~~~gp~IE~-d~~NFDaLn~P~dHPARdmqDTFy~~~~~~~~lLRTHTs~vq~R~l~~~~~~P  192 (335)
T COG0016         114 TQTIEEIEDIFLGMGFTEVEGPEIET-DFYNFDALNIPQDHPARDMQDTFYLKDDREKLLLRTHTSPVQARTLAENAKIP  192 (335)
T ss_pred             HHHHHHHHHHHHHcCceeccCCcccc-cccchhhhcCCCCCCcccccceEEEcCCCCceeecccCcHhhHHHHHhCCCCC
Confidence            45688899999999999999995543 1110          011 0012244332   3555  45522222211111 4


Q ss_pred             ceeEEEecceecCcCCCCccccchhhheee-ecccccHHHHHHHHHHHHHHHhHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVE-MEIKKHYSEVMDIVDCLFVTIFDS  368 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e-~a~~~~~~d~m~~~e~l~~~i~~~  368 (435)
                      -|+|++|+|||++.. +.+|+|+|.|+|-- +.-.-++.+|+-+++++++.++..
T Consensus       193 ~k~~~~grvyR~D~~-DaTHs~~FhQiEGlvvd~~~s~~~Lkg~L~~f~~~~fg~  246 (335)
T COG0016         193 IKIFSPGRVYRNDTV-DATHSPEFHQIEGLVVDKNISFADLKGTLEEFAKKFFGE  246 (335)
T ss_pred             ceEecccceecCCCC-CcccchheeeeEEEEEeCCccHHHHHHHHHHHHHHhcCC
Confidence            699999999999985 89999999999953 322223678999999999888853

>cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain

Probab=97.83  E-value=3.7e-05  Score=75.27  Aligned_cols=97  Identities=20%  Similarity=0.262  Sum_probs=67.3

Q ss_pred             hHHHHHHHHHHHHHHHhhcCC--eeeecCceeeecCCCCCcceeeec-----cCCCceeecc--Ch---HHHHhhhccC-
Q 013856          246 GIFRIQSQVGNIFRQFLLSEN--FVEIHTPKLIAGSSEGGSAVFRLD-----YKGQSACLAQ--SP---QLHKQMSICG-  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~g--F~EV~TP~l~~~~~egga~~F~~~-----~~~~~~~L~~--Sp---ql~lq~li~~-  312 (435)
                      .-.+++..|.+.+|+.|...|  |.||.||+|.+.      ..|.+.     .-+..+||+-  .|   -.++...... 
T Consensus        30 ~g~~l~~~i~~~~~~~~~~~g~~~~~i~tP~i~~~------~mf~~~~g~~d~~~~~~~Lrp~~~~~~~~~~~~~~~~~~  103 (254)
T cd00774          30 LGVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPE------LMFKTSIGPVESGGNLGYLRPETAQGIFVNFKNLLEFNR  103 (254)
T ss_pred             hHHHHHHHHHHHHHHHHHhcCCCeEEEeccccCCH------HHheeeecccCCCCcccccCCcccchHHHHHHHHHHHhC
Confidence            345788999999999999885  999999999753      566654     3456778874  22   1222222211 


Q ss_pred             -CC-ceeEEEecceecCcCCC--Cccccchhhheeeeccc
Q 013856          313 -DF-GRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIK  348 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~  348 (435)
                       .+ =|+|+||+|||+|.+..  .-=.-||||+|+|.-..
T Consensus       104 ~~lP~~~~qig~~fR~E~~~~~gl~R~ReF~q~d~~~f~~  143 (254)
T cd00774         104 RKLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVD  143 (254)
T ss_pred             CCCCchhhhhchhhccccCcccceeeeccchhhheeeeEC
Confidence             22 28999999999998522  12457999999987543

GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly

>PRK09194 prolyl-tRNA synthetase; Provisional

Probab=97.81  E-value=9.9e-05  Score=80.26  Aligned_cols=123  Identities=21%  Similarity=0.228  Sum_probs=80.9

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C------CCcceeee-ccCCCceeeccChH-----HHHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E------GGSAVFRL-DYKGQSACLAQSPQ-----LHKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e------gga~~F~~-~~~~~~~~L~~Spq-----l~lq~li~  311 (435)
                      .-++++..|.+.+|+.|.+.||.||.||.|.....  .      .|.+.|.+ +-.+++++|+-..+     ++...+..
T Consensus        45 ~g~~~~~~i~~~i~~~~~~~G~~ei~~P~l~~~~l~~~sg~~~~~~~emf~~~d~~~~~l~LrPt~e~~~~~~~~~~~~s  124 (565)
T PRK09194         45 LGLRVLRKIENIVREEMNKIGAQEVLMPALQPAELWQESGRWEEYGPELLRLKDRHGRDFVLGPTHEEVITDLVRNEIKS  124 (565)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECcccCcHHHHhhcCCccccchhceEEecCCCCEEEECCCChHHHHHHHHhhhhh
Confidence            45678999999999999999999999999985431  1      13457776 44578889885333     33332221


Q ss_pred             -CCC-ceeEEEecceecCcC-CCC-ccccchhhheeeecccccHHHHHHHHHHHH---HHHhHHh
Q 013856          312 -GDF-GRVFETGPVFRAEDS-YTH-RHLCEFTGLDVEMEIKKHYSEVMDIVDCLF---VTIFDSL  369 (435)
Q Consensus       312 -~g~-~rVfeIgp~FR~E~s-~t~-rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~---~~i~~~~  369 (435)
                       ..+ =|.|+|+++||.|.. ... -=.-||+|.|.|....+ -.+.....+.++   ..+|+.+
T Consensus       125 ~~~LP~r~yqi~~~fR~E~rp~~Gl~R~reF~q~d~~~f~~~-~~~a~~~~~~~~~~~~~i~~~l  188 (565)
T PRK09194        125 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHAD-EESLDETYDAMYQAYSRIFDRL  188 (565)
T ss_pred             cccCCeEEEEeeCCccCCCCCCCcccccccEEEeeEEEEcCC-hHHHHHHHHHHHHHHHHHHHHh
Confidence             122 399999999999942 111 02459999999998764 334333444444   4555544

>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain

Probab=97.81  E-value=5.8e-05  Score=75.57  Aligned_cols=115  Identities=16%  Similarity=0.230  Sum_probs=80.0

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C--C-----CcceeeeccCCCceeeccChHHHHhhhccC-----
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E--G-----GSAVFRLDYKGQSACLAQSPQLHKQMSICG-----  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e--g-----ga~~F~~~~~~~~~~L~~Spql~lq~li~~-----  312 (435)
                      .-.+++.+|.+.+++.+.+.||.||.||.|..... +  |     +.+.|.++  +.+++|+-..+..+=.+...     
T Consensus        50 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~~~f~v~--~~~~~L~pt~e~~~~~l~~~~~~s~  127 (297)
T cd00770          50 DGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYKVE--GEDLYLIATAEVPLAALHRDEILEE  127 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECcccccHHHHhhcCcCccChhcccEec--CCCEEEeecCCHHHHHHHhcccCCH
Confidence            46788999999999999999999999999987541 1  1     23456664  36788886665554433322     


Q ss_pred             -CC-ceeEEEecceecCcC------CCCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          313 -DF-GRVFETGPVFRAEDS------YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s------~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                       .+ =|+|++|+|||+|.+      .+.--.-||+|.|.+ .|+.. ++..+..++++..
T Consensus       128 ~~LPlr~~~~~~~fR~E~~~~g~~~~GL~R~reF~~~e~~-~f~~~-e~~~~~~~~~l~~  185 (297)
T cd00770         128 EELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQF-VFTKP-EESWEELEELISN  185 (297)
T ss_pred             hhCCchheecChhHhCccccCCCCCCCceEEEeeeeeeEE-EEECc-hHHHHHHHHHHHH
Confidence             12 389999999999975      233356799999996 45542 5555555555544

SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.

>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit

Probab=97.80  E-value=8.5e-05  Score=74.83  Aligned_cols=117  Identities=21%  Similarity=0.204  Sum_probs=80.1

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC---Ccceeee-ccCCCceeec--cChHHHHhhhcc-----
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG---GSAVFRL-DYKGQSACLA--QSPQLHKQMSIC-----  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg---ga~~F~~-~~~~~~~~L~--~Spql~lq~li~-----  311 (435)
                      .-.+++..|...+++.|.++||.+|+||++.....   .+   ..+.|.+ +.-|..+.||  ..|++-.- +..     
T Consensus         6 ~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~le~~~~~~~~~~~~~~~~~~~~d~~g~~l~LRpD~T~~iaR~-~~~~~~~~   84 (314)
T TIGR00443         6 EEAARKEEIERQLQDVFRSWGYQEIITPTLEYLDTLSAGGGILNEDLFKLFDSLGRVLGLRPDMTTPIARA-VSTRLRDR   84 (314)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeeccCcchhhHHHhcccCCcchhceEEEECCCCCEEeecCcCcHHHHHH-HHHhcccC
Confidence            34577899999999999999999999999866431   11   1235655 3357777887  35554432 221     


Q ss_pred             CCCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      ..--|+|++|+|||.|.. ...+.-||+|+.+|.-..++.   -|++.++-+.+..
T Consensus        85 ~~p~r~~y~g~VfR~~~~-~~gr~re~~Q~g~Eiig~~~~~adaEvi~l~~~~l~~  139 (314)
T TIGR00443        85 PLPLRLCYAGNVFRTNES-GAGRSREFTQAGVELIGAGGPAADAEVIALLIEALKA  139 (314)
T ss_pred             CCCeEEEEeceEeecCCC-cCCCcccccccceEEeCCCCchhHHHHHHHHHHHHHH
Confidence            123599999999999996 455678999999997544322   2566666655554

Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.

>PF13393 tRNA-synt_His: Histidyl-tRNA synthetase; PDB: 3HRI_E 3HRK_A 3LC0_A 1Z7N_A 1Z7M_D 3NET_A 1H4V_B 3OD1_A 4E51_B 3RAC_A

Probab=97.75  E-value=0.00018  Score=72.03  Aligned_cols=117  Identities=21%  Similarity=0.281  Sum_probs=77.8

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC------CCCcceeee-ccCCCceeec--cChHHHHhhhc---cCC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS------EGGSAVFRL-DYKGQSACLA--QSPQLHKQMSI---CGD  313 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~------egga~~F~~-~~~~~~~~L~--~Spql~lq~li---~~g  313 (435)
                      .-.+.+..|.+.+++.|..+||.+|+||++.....      +...+.|.+ +--|..+.||  ..+++-.-.+.   ...
T Consensus         8 ~~~~~~~~i~~~l~~~f~~~Gy~~i~~P~le~~~~~~~~~~~~~~~~~~~~D~~G~~l~LR~D~T~~iaR~~a~~~~~~~   87 (311)
T PF13393_consen    8 EEARKRERIESKLREVFERHGYEEIETPLLEYYELFLDKSGEDSDNMYRFLDRSGRVLALRPDLTVPIARYVARNLNLPR   87 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTT-EE-B--SEEEHHHHHCHSSTTGGCSEEEECTTSSEEEE-SSSHHHHHHHHHHCCGSSS
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCeEeecHHhhhccccchhhhEEEEecCCcEeccCCCCcHHHHHHHHHhcCcCC
Confidence            45678899999999999999999999999976431      112235655 3356667776  33344332221   234


Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeecccccHH---HHHHHHHHHHH
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYS---EVMDIVDCLFV  363 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~---d~m~~~e~l~~  363 (435)
                      .-|+|.+|+|||.+.. ...+.-||+|+.+|.-..++..   |++.++-+++.
T Consensus        88 ~~r~~y~g~vfR~~~~-~~g~~re~~Q~g~Eiig~~~~~~daEvi~l~~e~l~  139 (311)
T PF13393_consen   88 PKRYYYIGPVFRYERP-GKGRPREFYQCGFEIIGSSSLEADAEVIKLADEILD  139 (311)
T ss_dssp             SEEEEEEEEEEEEETT-TTTBESEEEEEEEEEESSSSHHHHHHHHHHHHHHHH
T ss_pred             CceEEEEcceeecccc-CCCCCceeEEEEEEEECCCCHHHHHHHHHHHHHHHH
Confidence            5799999999999975 3446689999999977655444   77777777775

...

>PLN02788 phenylalanine-tRNA synthetase

Probab=97.72  E-value=0.00012  Score=75.88  Aligned_cols=111  Identities=13%  Similarity=0.187  Sum_probs=72.3

Q ss_pred             HHHHHHHHhhcC---Ceeeec--CceeeecC--------C-CCCcceeeeccCCCceeec--cChHHHHhhhccCCCcee
Q 013856          254 VGNIFRQFLLSE---NFVEIH--TPKLIAGS--------S-EGGSAVFRLDYKGQSACLA--QSPQLHKQMSICGDFGRV  317 (435)
Q Consensus       254 i~~~~R~fl~~~---gF~EV~--TP~l~~~~--------~-egga~~F~~~~~~~~~~L~--~Spql~lq~li~~g~~rV  317 (435)
                      ++..|+++|...   ||.+++  .|+.+..-        . ..+-+.--+-|.+...-||  +|+--.-  +|..+-.|+
T Consensus        73 ~~~~i~~~f~~~~~~gf~~~~~~~~iv~~~~NFD~L~~P~dHPaR~~~DTfy~~~~~lLRTHTSa~q~~--~l~~~~~~~  150 (402)
T PLN02788         73 LKNAIYDYFDENYSNKFKKFDDLSPIVSTKQNFDDVLVPPDHVSRSYNDTYYVDAQTVLRCHTSAHQAE--LLRAGHTHF  150 (402)
T ss_pred             HHHHHHHHHhhcccCCcEEecCCCCccchhhhhhhhCCCCCCCccCccceEEecCCccccCCCcHHHHH--HHHhCCCcE
Confidence            355667777776   999998  55433210        0 1111112233566677777  4442222  222356699


Q ss_pred             EEEecceecCcCCCCccccchhhheeeecc--------------cccHHHHHHHHHHHHHHHhHH
Q 013856          318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEI--------------KKHYSEVMDIVDCLFVTIFDS  368 (435)
Q Consensus       318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~--------------~~~~~d~m~~~e~l~~~i~~~  368 (435)
                      +.+|.|||++.. |.+|.|+|.|+|.-+.+              .. ..++...+|.|+..+|..
T Consensus       151 ~~~g~VyRrD~i-D~tH~p~FhQ~EG~~v~~~~~~~~~~~~~~~~~-~~dLKg~Le~l~~~lfg~  213 (402)
T PLN02788        151 LVTGDVYRRDSI-DATHYPVFHQMEGVRVFSPEEWEASGLDGTDLA-AEDLKKTLEGLARHLFGD  213 (402)
T ss_pred             EEEeeEeecCCC-CcccCccceeEEEEEEecccccccccccccccC-HHHHHHHHHHHHHHhcCC
Confidence            999999999995 89999999999987765              22 567888888888877654

>PRK12305 thrS threonyl-tRNA synthetase; Reviewed

Probab=97.70  E-value=0.00012  Score=79.63  Aligned_cols=115  Identities=18%  Similarity=0.176  Sum_probs=73.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CCC------cceeee-ccCCCceeecc-ChHH----HHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EGG------SAVFRL-DYKGQSACLAQ-SPQL----HKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--egg------a~~F~~-~~~~~~~~L~~-Spql----~lq~li~  311 (435)
                      .-.+++..|.+.+|+.+...||.||.||+|.....  .+|      .+.|.+ +--|+.++|+- +...    |.+....
T Consensus       204 ~~~~~~~~l~~~~~~~~~~~Gy~ev~tP~le~~~l~~~sg~~~~~~~~my~~~d~~~~~~~LRP~~~~~~~~~~~~~~~s  283 (575)
T PRK12305        204 KGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSDLWKTSGHLDNYKENMFPPMEIDEEEYYLKPMNCPGHILIYKSRLRS  283 (575)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcCCcccchhhcccccccCCceEEEecCCCHHHHHHHhcccCC
Confidence            45678899999999999999999999999976431  112      234655 33467788872 2222    2222111


Q ss_pred             -CCCc-eeEEEecceecCcCCCC---ccccchhhheeeecccccHHHHHHHHHHHH
Q 013856          312 -GDFG-RVFETGPVFRAEDSYTH---RHLCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       312 -~g~~-rVfeIgp~FR~E~s~t~---rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                       ..+. |.|++|+|||+|.+...   .=.-||+|+|.+. |.. -+...+.+.+++
T Consensus       284 ~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~i-f~~-~~~~~~e~~e~i  337 (575)
T PRK12305        284 YRDLPLRLAEFGTVYRYEKSGVLHGLTRVRGFTQDDAHI-FCT-PDQIEDEILKVL  337 (575)
T ss_pred             hhhCCHhhEEecccccCCCCCCCcCcccccCeEEcceEE-EeC-HHHHHHHHHHHH
Confidence             1233 99999999999986321   1235999999995 533 334443333333

>PLN02908 threonyl-tRNA synthetase

Probab=97.69  E-value=0.00013  Score=81.17  Aligned_cols=121  Identities=15%  Similarity=0.111  Sum_probs=82.4

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CC------CcceeeeccCCCceeeccChHH-----HHhhhcc
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EG------GSAVFRLDYKGQSACLAQSPQL-----HKQMSIC  311 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--eg------ga~~F~~~~~~~~~~L~~Spql-----~lq~li~  311 (435)
                      -.-.+++..|++.+|+.+..+||.||.||.|.....  ..      +.+.|.++--+..++|+--..-     |......
T Consensus       318 P~g~~i~~~l~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sGh~~~~~~~mf~~~~~~~~~~Lrp~~~~~~~~~~~~~~~s  397 (686)
T PLN02908        318 PHGARIYNKLMDFIREQYWERGYDEVITPNIYNMDLWETSGHAAHYKENMFVFEIEKQEFGLKPMNCPGHCLMFAHRVRS  397 (686)
T ss_pred             chHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhccEEecCCeeEEEcCCCcHHHHHHHhccccC
Confidence            356789999999999999999999999999976431  11      1234665444677888744322     2222211


Q ss_pred             C-CC-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHHHHHHHHHHhH
Q 013856          312 G-DF-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       312 ~-g~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~  367 (435)
                      - .+ =|+|++|+|||+|.+.   +..=.-||+|.|.+. |+. .+++.+.+++++..+..
T Consensus       398 ~r~LPlr~~~~g~~fR~E~~~~l~Gl~RvReF~q~d~~i-f~~-~~q~~~e~~~~l~~~~~  456 (686)
T PLN02908        398 YRELPLRLADFGVLHRNELSGALTGLTRVRRFQQDDAHI-FCR-EDQIKDEVKGVLDFLDY  456 (686)
T ss_pred             hhhCCHhHEEeeccccCCCCcCCcCccccccEEEeeEEE-EcC-HHHHHHHHHHHHHHHHH
Confidence            1 12 2899999999999863   333456999999998 664 56777777666655443

>TIGR00414 serS seryl-tRNA synthetase

Probab=97.68  E-value=0.00021  Score=75.00  Aligned_cols=116  Identities=15%  Similarity=0.227  Sum_probs=80.0

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-------CC-CcceeeeccCCCceeeccChHHHHhhhccC-----
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-------EG-GSAVFRLDYKGQSACLAQSPQLHKQMSICG-----  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-------eg-ga~~F~~~~~~~~~~L~~Spql~lq~li~~-----  312 (435)
                      .-.++..+|++++++.+.+.||.||.||.|.....       ++ +.+.|.+.  +.++||+-..+..+-.+...     
T Consensus       171 ~g~~l~~aL~~~~~~~~~~~G~~~v~~P~lv~~~~~~~~G~~~~f~~~~y~i~--~~~~~L~pTsE~~~~~~~~~~i~s~  248 (418)
T TIGR00414       171 DGAKLERALINFMLDLLEKNGYQEIYPPYLVNEESLDGTGQLPKFEEDIFKLE--DTDLYLIPTAEVPLTNLHRNEILEE  248 (418)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCccccccccceEec--CCCEEEEeCCcHHHHHHHhCcCCCh
Confidence            45678899999999999999999999999987542       11 23356664  46788887765444322211     


Q ss_pred             -CC-ceeEEEecceecCcCC------CCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856          313 -DF-GRVFETGPVFRAEDSY------THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i  365 (435)
                       .+ =|+|++|+|||+|.+.      +.-=.-||++.|. ..|+. -++..+..++++...
T Consensus       249 ~~LPlr~~~~s~~FR~E~g~~G~~t~GL~Rv~qF~k~E~-~~f~~-~e~s~~~~~~~~~~~  307 (418)
T TIGR00414       249 EELPIKYTAHSPCFRSEAGSYGKDTKGLIRVHQFNKVEL-VKFCK-PEESAEELEEMTSDA  307 (418)
T ss_pred             HhCCeeEEEEcccccCCCCccCCCCCccccccceeeeeE-EEEcC-HHHHHHHHHHHHHHH
Confidence             22 3899999999999631      2223459999999 45654 566677666666543

This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.

>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=97.66  E-value=0.00033  Score=69.69  Aligned_cols=113  Identities=19%  Similarity=0.311  Sum_probs=79.5

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC---CCcceeee-ccCCCceeec--cChHHHHhhhc---cCC-Cc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE---GGSAVFRL-DYKGQSACLA--QSPQLHKQMSI---CGD-FG  315 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e---gga~~F~~-~~~~~~~~L~--~Spql~lq~li---~~g-~~  315 (435)
                      .-...+..|.+.+++.|...||-||.||++--...-   ...+.|++ +.-|+.+.||  ..+++-.-.+-   -.. --
T Consensus        17 ~e~~~~~~i~~~l~~vf~~~Gy~~I~tP~lE~~e~~~~~~~~~~y~~~D~~g~~l~LRpD~T~~iaR~~a~~~~~~~~p~   96 (281)
T PRK12293         17 KSAKLKREIENVASEILYENGFEEIVTPFFSYHQHQSIADEKELIRFSDEKNHQISLRADSTLDVVRIVTKRLGRSTEHK   96 (281)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeEeeccceeehhhhcccchhceEEEECCCCCEEEECCcCCHHHHHHHHHhcccCCCce
Confidence            455678889999999999999999999999653321   12335665 3356667777  44444332111   011 23


Q ss_pred             eeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856          316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i  365 (435)
                      |.|.+|+|||.|.       .||+|+.+|+-..++..|++.++-+.+..+
T Consensus        97 r~~Y~g~vfR~~~-------rEf~Q~GvEliG~~~~~Evi~la~~~l~~l  139 (281)
T PRK12293         97 KWFYIQPVFRYPS-------NEIYQIGAELIGEEDLSEILNIAAEIFEEL  139 (281)
T ss_pred             eEEEeccEEecCC-------CcccccCeEeeCCCCHHHHHHHHHHHHHHc
Confidence            9999999999874       599999999988887777777777666654

>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=97.64  E-value=0.00025  Score=73.72  Aligned_cols=119  Identities=21%  Similarity=0.222  Sum_probs=80.3

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-CC----cceeee-cc-CCCceeec--cChHHHHhhhcc---
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GG----SAVFRL-DY-KGQSACLA--QSPQLHKQMSIC---  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gg----a~~F~~-~~-~~~~~~L~--~Spql~lq~li~---  311 (435)
                      .-.+.+..+...+++.|..+||.||.||++-....  . +|    .+.|++ +. -|+.+.||  ..+++-.-.+-.   
T Consensus        15 ~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~e~~~~~~g~~~~~~~~~f~d~~~g~~l~LRpD~T~~iaR~~a~~~~~   94 (391)
T PRK12292         15 EEARKIEEIRRRLLDLFRRWGYEEVITPTLEYLDTLLAGGGAILDLRTFKLVDQLSGRTLGLRPDMTAQIARIAATRLAN   94 (391)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCceeeCcchhhHHHHhccCCccchhhhEEEeecCCCCEEEECCCCcHHHHHHHHHhccC
Confidence            45567889999999999999999999999954321  1 11    225655 33 46777777  445554321110   


Q ss_pred             -CCCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHHH
Q 013856          312 -GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVTI  365 (435)
Q Consensus       312 -~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~i  365 (435)
                       ..--|+|++|+|||.|.. ..-+.-||+|+.+|.-..++.   -|++.++-+.+..+
T Consensus        95 ~~~p~r~~y~g~vfR~~~~-~~gr~ref~Q~g~EiiG~~~~~aDaEvi~l~~~~l~~l  151 (391)
T PRK12292         95 RPGPLRLCYAGNVFRAQER-GLGRSREFLQSGVELIGDAGLEADAEVILLLLEALKAL  151 (391)
T ss_pred             CCCCeEEEeeceeeecCCC-cCCCccchhccceEEeCCCCchHHHHHHHHHHHHHHHc
Confidence             112399999999999985 444578999999998655433   46777776666654

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=97.64  E-value=0.00023  Score=74.79  Aligned_cols=116  Identities=12%  Similarity=0.207  Sum_probs=80.8

Q ss_pred             hHHHHHHHHHHHHHHHhh-cCCeeeecCceeeecCC-C--C-----CcceeeeccCCCceeeccChHHHHhhhccCC---
Q 013856          246 GIFRIQSQVGNIFRQFLL-SENFVEIHTPKLIAGSS-E--G-----GSAVFRLDYKGQSACLAQSPQLHKQMSICGD---  313 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~-~~gF~EV~TP~l~~~~~-e--g-----ga~~F~~~~~~~~~~L~~Spql~lq~li~~g---  313 (435)
                      .-.++..+|++++++.+. ++||.||.||.|..... +  |     +.+.|.+.  +.++||.-..+..+=.+....   
T Consensus       168 ~ga~L~~aL~~~~~~~~~~~~G~~ev~~P~lv~~~~~~~~G~~~~f~~~ly~i~--~~~~~L~pTsE~~l~~l~~~~~~s  245 (425)
T PRK05431        168 DGARLERALIQFMLDLHTEEHGYTEVIPPYLVNEESMYGTGQLPKFEEDLYKIE--DDDLYLIPTAEVPLTNLHRDEILD  245 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCEEEeccccccHHHHhhcCccccchhhceEec--CCCEEEEeCCcHHHHHHHhcccCC
Confidence            456788899999999998 99999999999987431 1  1     23356664  578899876655543222221   


Q ss_pred             ---C-ceeEEEecceecCcCC------CCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856          314 ---F-GRVFETGPVFRAEDSY------THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       314 ---~-~rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i  365 (435)
                         + =|+|++++|||.|.+.      +.-=.-||+|.|.+ .|+. -++..+..++++..+
T Consensus       246 ~~dLPlr~~~~s~~fR~Eag~~g~~~~GL~Rv~qF~k~E~~-~f~~-~e~s~~~~~~~l~~~  305 (425)
T PRK05431        246 EEELPLKYTAYSPCFRSEAGSAGRDTRGLIRVHQFDKVELV-KFTK-PEDSYAELEELTANA  305 (425)
T ss_pred             HHhCCeeEEEEcCEecCCCCcCCCCCCceeeeeeeeeeeEE-EEEC-HHHHHHHHHHHHHHH
Confidence               2 3899999999999742      11134599999998 5665 467777777666543

>TIGR00418 thrS threonyl-tRNA synthetase

Probab=97.60  E-value=0.00017  Score=78.26  Aligned_cols=117  Identities=17%  Similarity=0.203  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CCC------cceeeec-cCCCceeeccChHH-----HHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EGG------SAVFRLD-YKGQSACLAQSPQL-----HKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--egg------a~~F~~~-~~~~~~~L~~Spql-----~lq~li~  311 (435)
                      .-.+++..|.+.+|+.+...||.||.||+|.....  .+|      .+.|.+. --|+.++|+-...-     |.+....
T Consensus       198 ~g~~~~~~i~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sg~~~~~~~emy~~~d~~~~~~~LrP~~~~~i~~~~~~~~~s  277 (563)
T TIGR00418       198 KGATIRNLLEDFVRQKQIKYGYMEVETPIMYDLELWEISGHWDNYKERMFPFTELDNREFMLKPMNCPGHFLIFKSSLRS  277 (563)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCcccchhhcceeccCCCceEEEecCCCHHHHHHHhCcCCC
Confidence            34567899999999999999999999999976431  111      1245542 23578888844432     3332221


Q ss_pred             -CCC-ceeEEEecceecCcCCCC----ccccchhhheeeeccccc-----HHHHHHHHHHHHH
Q 013856          312 -GDF-GRVFETGPVFRAEDSYTH----RHLCEFTGLDVEMEIKKH-----YSEVMDIVDCLFV  363 (435)
Q Consensus       312 -~g~-~rVfeIgp~FR~E~s~t~----rHl~EFt~lE~e~a~~~~-----~~d~m~~~e~l~~  363 (435)
                       ..+ -|+|++|+|||+|.+ +.    -=.-||+|.|.|.-....     +.++++++.+++.
T Consensus       278 ~~~lP~rl~~~g~~fR~E~~-g~~~Gl~R~reF~q~~~~~~~~~~~~~~e~~~~i~~~~~~~~  339 (563)
T TIGR00418       278 YRDLPLRIAELGYSHRYEQS-GELHGLMRVRGFTQDDAHIFCTEDQIKEEFKNQFRLIQKVYS  339 (563)
T ss_pred             hHHCCceeeEeccccCCCCC-cCCcCcccccceEEeeeEEEcCHHHHHHHHHHHHHHHHHHHH
Confidence             123 399999999999964 31    123589999998754310     2335555555554

This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..

>PLN02972 Histidyl-tRNA synthetase

Probab=97.55  E-value=0.00037  Score=77.36  Aligned_cols=120  Identities=14%  Similarity=0.257  Sum_probs=79.1

Q ss_pred             hhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CC-C---cceeee-ccCCCceeec--cChHHHHhhhccC-C
Q 013856          244 NQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EG-G---SAVFRL-DYKGQSACLA--QSPQLHKQMSICG-D  313 (435)
Q Consensus       244 ~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--eg-g---a~~F~~-~~~~~~~~L~--~Spql~lq~li~~-g  313 (435)
                      .-.-..+|..|...+++.|..+||.||.||++-....  .+ |   ...|.+ +.-|+.+.||  ..+.+---.+.-. .
T Consensus       337 lP~e~~~re~I~~~L~~vFk~hGy~eI~TPvfE~~Ell~~k~Ged~k~mY~f~D~gGr~LaLRPDlTvPiAR~vA~n~~~  416 (763)
T PLN02972        337 AKEQMAIREKAFSIITSVFKRHGATALDTPVFELRETLMGKYGEDSKLIYDLADQGGELCSLRYDLTVPFARYVAMNGIT  416 (763)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCEEccCCcccchHHhhcccCcchhheEEEECCCCCEEEeCCCChHHHHHHHHhCCCC
Confidence            3466778999999999999999999999999854321  11 1   125655 3446666666  2333322111100 1


Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeeccc-ccH---HHHHHHHHHHHHH
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~---~d~m~~~e~l~~~  364 (435)
                      --|.|+||+|||.|.. ..-+.-||+||++|+... +..   -|++.++-+.+..
T Consensus       417 p~KrYyiG~VFR~e~p-qkGR~REF~Q~G~EIIG~~~~~~aDAEVI~La~E~L~~  470 (763)
T PLN02972        417 SFKRYQIAKVYRRDNP-SKGRYREFYQCDFDIAGVYEPMGPDFEIIKVLTELLDE  470 (763)
T ss_pred             cceEEEeccEEecCCC-CCCCCccceEEeEEEEcCCCcchhhHHHHHHHHHHHHh
Confidence            2378889999999985 334568999999998764 211   4677777766654

>PRK12444 threonyl-tRNA synthetase; Reviewed

Probab=97.55  E-value=0.00033  Score=77.25  Aligned_cols=113  Identities=17%  Similarity=0.194  Sum_probs=72.3

Q ss_pred             HHHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCCC-----cceeeeccCCCceeeccChHHHHhhhccC------C
Q 013856          248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEGG-----SAVFRLDYKGQSACLAQSPQLHKQMSICG------D  313 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~egg-----a~~F~~~~~~~~~~L~~Spql~lq~li~~------g  313 (435)
                      .+++..|.+.+++.+.+.||.||.||+|....   ..|.     .+.|.++--++.++|+-..+-..=.+...      +
T Consensus       274 ~~~~~~i~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sG~~~~~~~emy~~d~~~~~~~LrP~~~~~~~~~~~~~~~sy~~  353 (639)
T PRK12444        274 QIIRNELEAFLREIQKEYNYQEVRTPFMMNQELWERSGHWDHYKDNMYFSEVDNKSFALKPMNCPGHMLMFKNKLHSYRE  353 (639)
T ss_pred             HHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcCChhhhhhhcCeecCCCcEEEEccCCCHHHHHHHhCcccChhh
Confidence            34566699999999999999999999997753   1121     12343333356777885543333222211      2


Q ss_pred             C-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHHHHHHH
Q 013856          314 F-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       314 ~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                      + -|.|++|+|||.|.+.   +.-=.-||+|.|.+ .|.. -+++...+++++
T Consensus       354 LP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~d~~-~f~~-~~~~~~e~~~~~  404 (639)
T PRK12444        354 LPIRMCEFGQVHRHEFSGALNGLLRVRTFCQDDAH-LFVT-PDQIEDEIKSVM  404 (639)
T ss_pred             CCceeEEeccccCCCCCcCCcCcceeeeeEEccEE-EECC-HHHHHHHHHHHH
Confidence            2 3999999999999863   21124599999999 6664 344444433333

>PRK14799 thrS threonyl-tRNA synthetase; Provisional

Probab=97.53  E-value=0.00033  Score=75.72  Aligned_cols=119  Identities=15%  Similarity=0.141  Sum_probs=78.9

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC--CCCCc------ceeeeccCCCceeeccChH-----HHHhhhccC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS--SEGGS------AVFRLDYKGQSACLAQSPQ-----LHKQMSICG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~egga------~~F~~~~~~~~~~L~~Spq-----l~lq~li~~  312 (435)
                      .-.++|..|...+|+.+.++||.||.||.|....  ..+|-      +.|.++--+.+++|+--..     +|.+....-
T Consensus       166 ~G~~i~~~L~~~~r~~~~~~Gy~eV~TP~i~~~eL~k~SGh~~~y~~~mf~~~~~~e~~~LrPm~cp~~~~~~~~~~~Sy  245 (545)
T PRK14799        166 KGQTIRNELIAFMREINDSMGYQEVYTSHVFKTDIWKISGHYTLYRDKLIVFNMEGDEYGVKPMNCPAHILIYKSKPRTY  245 (545)
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCeEEECCccchHHHHhhccccccchhhcceeeccCceEEeccCCCHHHHHHHhccccCh
Confidence            5668999999999999999999999999985533  11221      2354444467788874332     333322211


Q ss_pred             -CC-ceeEEEecceecCcCCCC---ccccchhhheeeecccccHHHHHHHHHHHHHHHh
Q 013856          313 -DF-GRVFETGPVFRAEDSYTH---RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIF  366 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s~t~---rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~  366 (435)
                       .+ =|.|++|+|||.|.+...   .=.-||||.|... |+. .+++.+.+.+++..+.
T Consensus       246 rdLPlR~~e~g~vfR~E~sg~l~GL~RvReF~Q~DaHi-f~~-~~q~~~E~~~~l~~i~  302 (545)
T PRK14799        246 RDLPIRFSEFGHVYRWEKKGELYGLLRVRGFVQDDGHI-FLR-EDQLREEIKMLISKTV  302 (545)
T ss_pred             hhCCHhhEEecceecCCCCCCccccccceeEEEcccEE-EeC-HHHHHHHHHHHHHHHH
Confidence             22 289999999999997431   2346999999998 765 4555555555444443

>PRK00413 thrS threonyl-tRNA synthetase; Reviewed

Probab=97.52  E-value=0.00044  Score=76.17  Aligned_cols=100  Identities=24%  Similarity=0.333  Sum_probs=68.1

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCC-----Ccceeee-ccCCCceeeccC--hH---HHHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEG-----GSAVFRL-DYKGQSACLAQS--PQ---LHKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~eg-----ga~~F~~-~~~~~~~~L~~S--pq---l~lq~li~  311 (435)
                      .-.+++..|.+.+++.|...||.||.||+|....   ..|     ..+.|.+ +--|+.+.|+--  |.   +|.+....
T Consensus       268 ~~~~~~~~i~~~~~~~~~~~Gy~ei~tP~le~~~l~~~~g~~~~~~~~my~~~d~~~~~~~LRP~~~~~~~r~~~~~~~s  347 (638)
T PRK00413        268 KGWTIRRELERYIRRKLRKAGYQEVKTPQILDRELWETSGHWDHYRENMFPTTESDGEEYALKPMNCPGHVQIYKQGLRS  347 (638)
T ss_pred             cHHHHHHHHHHHHHHHHHHCCCEEEECCeeCCHHHHHhcCChhhhhhccceeecCCCcEEEEecCCcHHHHHHHhCcCCC
Confidence            5567899999999999999999999999996643   112     1224664 334677888732  22   23332211


Q ss_pred             -CCCc-eeEEEecceecCcCCC---Cccccchhhheeee
Q 013856          312 -GDFG-RVFETGPVFRAEDSYT---HRHLCEFTGLDVEM  345 (435)
Q Consensus       312 -~g~~-rVfeIgp~FR~E~s~t---~rHl~EFt~lE~e~  345 (435)
                       ..+. |.|++|+|||.|.+..   ..=.-||||+|++.
T Consensus       348 ~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~~  386 (638)
T PRK00413        348 YRDLPLRLAEFGTVHRYEPSGALHGLMRVRGFTQDDAHI  386 (638)
T ss_pred             hhhCCceeeeccCeecCCCCCCCcCcceeeeeEEeeEEE
Confidence             1233 9999999999998632   11235999999997

>PRK08661 prolyl-tRNA synthetase; Provisional

Probab=97.52  E-value=0.00019  Score=76.50  Aligned_cols=116  Identities=16%  Similarity=0.058  Sum_probs=83.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC------CcceeeeccC-----CCceeeccCh-----HHHH
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG------GSAVFRLDYK-----GQSACLAQSP-----QLHK  306 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg------ga~~F~~~~~-----~~~~~L~~Sp-----ql~l  306 (435)
                      .-++++..|.+.+++.|...||.||.||.|.+...   ++      +.+.|.+..-     +.+++|+-..     .+|.
T Consensus        42 ~g~~i~~~i~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~~~v~~~~~~~~~e~l~LrPtsE~~i~~~~~  121 (477)
T PRK08661         42 YGYAIWENIQKILDKLFKETGHENVYFPLLIPESLLEKEKEHVEGFAPEVAWVTHGGGEKLEEKLALRPTSETIIYPMYK  121 (477)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhhcCchhhcccccEEEEccCCCccCceEEEecCCcHHHHHHHH
Confidence            45688999999999999999999999999977542   12      2346776432     4678998655     3444


Q ss_pred             hhhcc-CCC-ceeEEEecceecCcCCCC--ccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          307 QMSIC-GDF-GRVFETGPVFRAEDSYTH--RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       307 q~li~-~g~-~rVfeIgp~FR~E~s~t~--rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      ..... .+| =|+|++|+|||.|.+ ++  -=.-||+|.|.+..+.+ .++..+.++.++.
T Consensus       122 ~~i~SyrdLPlrl~q~~~vfR~E~~-~rgl~R~rEF~~~E~h~~~~~-~eea~~e~~~~l~  180 (477)
T PRK08661        122 KWIQSYRDLPLLYNQWVNVVRWETK-TRPFLRTREFLWQEGHTAHAT-EEEAEEETLEMLE  180 (477)
T ss_pred             hhhcchhhcCHHHhcccceeeCCCC-CCCcceeeeEEEcceeeeeCC-HHHHHHHHHHHHH
Confidence            43222 123 289999999999996 43  24569999999998886 6777666666553

>PRK12420 histidyl-tRNA synthetase; Provisional

Probab=97.51  E-value=0.00045  Score=72.47  Aligned_cols=120  Identities=19%  Similarity=0.280  Sum_probs=79.3

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC--CC--C-Cc----ceeee-ccCCCceeec--cChHHHHhhhccC
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS--SE--G-GS----AVFRL-DYKGQSACLA--QSPQLHKQMSICG  312 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~e--g-ga----~~F~~-~~~~~~~~L~--~Spql~lq~li~~  312 (435)
                      -.-..++..|.+.+++.|...||.||.||.|-...  ..  | +.    ..|.+ +.-|+.+.||  ..+++-.-.+.-.
T Consensus        15 p~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~~~~~~~~~~~~~~~~~~~~~~D~~g~~l~LRpD~T~~iaR~va~~~   94 (423)
T PRK12420         15 PEEQVLRNKIKRALEDVFERYGCKPLETPTLNMYELMSSKYGGGDEILKEIYTLTDQGKRDLALRYDLTIPFAKVVAMNP   94 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHHhcccCCCcccccceEEEecCCCceecccccccHHHHHHHHhCc
Confidence            34557788899999999999999999999997642  11  1 21    24554 3356667776  3334432211111


Q ss_pred             --CCc-eeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHHH
Q 013856          313 --DFG-RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVTI  365 (435)
Q Consensus       313 --g~~-rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~i  365 (435)
                        .+. |.|++|+|||.|.. ..-+.-||+|+.+|+-..++.   -|++.++-+.+..+
T Consensus        95 ~~~~p~r~~y~g~vfR~~~~-~~gr~rE~~Q~g~EiiG~~~~~adaEvi~la~~~l~~l  152 (423)
T PRK12420         95 NIRLPFKRYEIGKVFRDGPI-KQGRFREFIQCDVDIVGVESVMAEAELMSMAFELFRRL  152 (423)
T ss_pred             CCCCCeeEEEEcceECCCCC-CCCccceeEECCeeeECCCCCcccHHHHHHHHHHHHHC
Confidence              223 89999999999985 344678999999998554322   46777776666543

>CHL00201 syh histidine-tRNA synthetase; Provisional

Probab=97.51  E-value=0.00037  Score=73.29  Aligned_cols=118  Identities=20%  Similarity=0.291  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C--C-C-----cceeee-ccCCCceeec--cChHHHH---hhh
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E--G-G-----SAVFRL-DYKGQSACLA--QSPQLHK---QMS  309 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e--g-g-----a~~F~~-~~~~~~~~L~--~Spql~l---q~l  309 (435)
                      .-...+..|.+.+++.|...||.||.||++-....  .  | .     .+.|.+ +.-|+.+.||  ..|++..   +..
T Consensus        16 ~~~~~~~~i~~~i~~~~~~~Gy~~I~TP~~E~~e~~~~~~G~~~~~~~~~my~~~d~~g~~l~LRpd~T~~iaR~~~~~~   95 (430)
T CHL00201         16 DEINYWQFIHDKALTLLSLANYSEIRTPIFENSSLYDRGIGETTDIVNKEMYRFTDRSNRDITLRPEGTAGIVRAFIENK   95 (430)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeeecCcccchHHHHhcccCCcccccccceEEEEcCCCCEEEeCCCCcHHHHHHHHHcc
Confidence            44567899999999999999999999999865331  1  2 1     235665 3346777887  4444433   211


Q ss_pred             ccC-CC-ceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          310 ICG-DF-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       310 i~~-g~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      ... .. -|.|++|+|||.|.+...|- -||+|+++|+-..++.   -|++.++-+.+..
T Consensus        96 ~~~~~~p~R~~y~g~vfR~e~~q~GR~-Ref~Q~g~EiiG~~~~~aD~Evi~l~~~~l~~  154 (430)
T CHL00201         96 MDYHSNLQRLWYSGPMFRYERPQSGRQ-RQFHQLGIEFIGSIDARADTEVIHLAMQIFNE  154 (430)
T ss_pred             ccccCCCeEEEEEcceecCCCCcCCcc-ceeEEeceEEECCCChhhHHHHHHHHHHHHHH
Confidence            111 23 39999999999998655554 5999999998765432   2566666665544

>PRK03991 threonyl-tRNA synthetase; Validated

Probab=97.46  E-value=0.00051  Score=75.29  Aligned_cols=121  Identities=17%  Similarity=0.236  Sum_probs=84.6

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeec---C----CCC-CcceeeeccCCCceeeccChH-----HHHhhhccC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAG---S----SEG-GSAVFRLDYKGQSACLAQSPQ-----LHKQMSICG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~---~----~eg-ga~~F~~~~~~~~~~L~~Spq-----l~lq~li~~  312 (435)
                      .-.+++..|.+++++.+.+.||.+|.||.|...   .    .++ +.+.|.+.--+..++|+-..+     +|+.....-
T Consensus       225 ~G~~i~~~L~~~~~~~~~~~G~~~V~tP~~~~~~~~~~sgh~~~f~e~my~v~~~~e~l~Lrp~~c~~~~~~~~~~~~Sy  304 (613)
T PRK03991        225 KGRLIRDLLEDYVYNLVVELGAMPVETPIMYDLSHPAIREHADKFGERQYRVKSDKKDLMLRFAACFGQFLMLKDMTISY  304 (613)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCeecChhHHhhcccccccchhceEecCCCceEEEecCCCHHHHHHHhCCcCch
Confidence            567899999999999999999999999988432   1    112 445677755567888885544     223322110


Q ss_pred             -CC-ceeEEEec-ceecCcCCC---CccccchhhheeeecccccHHHHHHHHHHHHHHHhH
Q 013856          313 -DF-GRVFETGP-VFRAEDSYT---HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       313 -g~-~rVfeIgp-~FR~E~s~t---~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~  367 (435)
                       .+ =|+|++|+ |||+|.+..   ..=+-||||.|.+.-..+ .++.++.++.++..+..
T Consensus       305 rdLPlr~~e~~~~~fR~E~~g~l~GL~RvReF~~~D~h~f~~~-~eqa~~e~~~~l~~~~~  364 (613)
T PRK03991        305 KNLPLKMYELSTYSFRLEQRGELVGLKRLRAFTMPDMHTLCKD-MEQAMEEFEKQYEMILE  364 (613)
T ss_pred             hhCChhhheecchheeCCCCCCCcCcccccceEeeeEEEEECC-HHHHHHHHHHHHHHHHH
Confidence             12 27999999 999998522   334569999999875543 67888877777766544

>PRK12325 prolyl-tRNA synthetase; Provisional

Probab=97.45  E-value=0.0006  Score=71.97  Aligned_cols=115  Identities=16%  Similarity=0.146  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----CC---C-Ccceeee-ccCCCceeeccCh-----HHHHhhhcc-
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----SE---G-GSAVFRL-DYKGQSACLAQSP-----QLHKQMSIC-  311 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~e---g-ga~~F~~-~~~~~~~~L~~Sp-----ql~lq~li~-  311 (435)
                      -.+++..|.+.+|+.+...||.||.||.|....    ++   + +.+.|.+ +--+.+++|+...     .++...... 
T Consensus        46 g~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~emf~~~d~~~~~~~L~Pt~e~~~~~~~~~~~~sy  125 (439)
T PRK12325         46 GLKVLKKIENIVREEQNRAGAIEILMPTIQPADLWRESGRYDAYGKEMLRIKDRHDREMLYGPTNEEMITDIFRSYVKSY  125 (439)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhheEEecCCCCEEEEcCCCcHHHHHHHHHHhhhc
Confidence            467899999999999999999999999998642    11   1 3346776 3456788888522     333332211 


Q ss_pred             CCC-ceeEEEecceecCcCC--CCccccchhhheeeecccccHHHHHHHHHHHH
Q 013856          312 GDF-GRVFETGPVFRAEDSY--THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       312 ~g~-~rVfeIgp~FR~E~s~--t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                      ..+ =|+|+||++||+|.+.  +..=.-||+|-|.|....+ .+++.+...+++
T Consensus       126 rdLPlrl~q~~~~fR~E~~~~~GL~R~reF~~~D~h~f~~~-~~~a~~~~~~~~  178 (439)
T PRK12325        126 KDLPLNLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFDLD-EEGARHSYNRMF  178 (439)
T ss_pred             hhhchHheEecCEecCCCCCCCCccccceEeEeccEEEeCC-HHHHHHHHHHHH
Confidence            123 4899999999999641  1113579999999887665 455555444443

>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I

Probab=97.45  E-value=0.0003  Score=74.92  Aligned_cols=115  Identities=21%  Similarity=0.191  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCC------CcceeeeccC-----CCceeeccChHHHH-----h
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEG------GSAVFRLDYK-----GQSACLAQSPQLHK-----Q  307 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~eg------ga~~F~~~~~-----~~~~~L~~Spql~l-----q  307 (435)
                      =.+++..|.+.+++-+.+.||.||.||.|....   .+|      +.+.|.+.-.     +.+++|+-..+-..     .
T Consensus        37 g~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~f~v~~~g~~~~~e~l~LrPt~e~~i~~~~~~  116 (472)
T TIGR00408        37 GFKIWKNIQKILRNILDEIGHEEVYFPMLIPESELAKEKDHIKGFEPEVYWITHGGLSKLDEPLALRPTSETAMYPMFKK  116 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhhcchhhhcchhcEEEecCCCCccCCcEEEeCCCcHHHHHHHhc
Confidence            345689999999999999999999999997643   122      2346777543     37889986654332     2


Q ss_pred             hhccC--CC-ceeEEEecceecCcCCC--CccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          308 MSICG--DF-GRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       308 ~li~~--g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      . +.+  .+ =|+|++|+|||+|.+.+  .-=..||+|.|.+..|.+ .++....++.++.
T Consensus       117 ~-i~S~rdLPlr~~q~~~vfR~E~~~~~gl~R~rEF~~~e~h~~~~~-~e~a~~e~~~~l~  175 (472)
T TIGR00408       117 W-VKSYTDLPLKINQWVNVFRYETKHTRPFLRTREFTWQEAHTAHAT-AEEAEEQVLRALD  175 (472)
T ss_pred             c-ccChhhcCHHHhheeeeecCCCCCCCCcceeeeeehhhhhhhhCC-HHHHHHHHHHHHH
Confidence            2 222  23 28999999999999632  123569999999988876 6776666665554

Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.

>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=97.36  E-value=0.0011  Score=68.90  Aligned_cols=119  Identities=13%  Similarity=0.119  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-CCc----ceeeecc--CCCceeec--cChHHHHhhh--cc-
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GGS----AVFRLDY--KGQSACLA--QSPQLHKQMS--IC-  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gga----~~F~~~~--~~~~~~L~--~Spql~lq~l--i~-  311 (435)
                      .-.+.+..|.+.+++.|...||.||.||++-....  . .|.    ..|++..  -|+.+-||  ..+++-.-.+  .. 
T Consensus        19 ~e~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~e~~~~~~g~~~~~~~y~f~D~~~g~~l~LRpD~T~~iaR~~a~~~~~   98 (392)
T PRK12421         19 EEAQKIERLRRRLLDLFASRGYQLVMPPLIEYLESLLTGAGQDLKLQTFKLIDQLSGRLMGVRADITPQVARIDAHLLNR   98 (392)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEeeCcchhhHHHHhccCCccchhceEEEEcCCCCcEEEECCcCCHHHHHHHHhhcCC
Confidence            45677889999999999999999999999864331  1 122    2465432  25556666  3444433110  01 


Q ss_pred             CCCceeEEEecceecCcCCCCccccchhhheeeecccccHH---HHHHHHHHHHHHH
Q 013856          312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYS---EVMDIVDCLFVTI  365 (435)
Q Consensus       312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~---d~m~~~e~l~~~i  365 (435)
                      ..--|.|.+|+|||.+.....| .-||+|+.+|+-..++..   |++.++-+.+..+
T Consensus        99 ~~p~R~~Y~g~VfR~~~~~~gr-~rEf~Q~GvEiiG~~~~~aDaEvi~l~~e~l~~l  154 (392)
T PRK12421         99 EGVARLCYAGSVLHTLPQGLFG-SRTPLQLGAELYGHAGIEADLEIIRLMLGLLRNA  154 (392)
T ss_pred             CCceEEEEeeeEEEcCCCcCCC-cCccceeceEEeCCCCchhHHHHHHHHHHHHHHc
Confidence            1235999999999998754444 479999999986655443   7777777777654

>PLN02530 histidine-tRNA ligase

Probab=97.36  E-value=0.00078  Score=72.05  Aligned_cols=118  Identities=17%  Similarity=0.257  Sum_probs=78.7

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-CCc----ceeee-ccCCCceeec--cChHHHHhhhccC--
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GGS----AVFRL-DYKGQSACLA--QSPQLHKQMSICG--  312 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gga----~~F~~-~~~~~~~~L~--~Spql~lq~li~~--  312 (435)
                      -.-.+.+..|...+++.|...||.||.||+|-....  . .|.    +.|.+ +.-|+.+.||  ..|++..-  ++.  
T Consensus        81 p~~~~~~~~i~~~~~~~~~~~Gy~~I~tP~lE~~el~~~~~g~~~~~~~y~f~D~~g~~l~LRpD~T~~iaR~--~~~~~  158 (487)
T PLN02530         81 PEDMRLRNWLFDHFREVSRLFGFEEVDAPVLESEELYIRKAGEEITDQLYNFEDKGGRRVALRPELTPSLARL--VLQKG  158 (487)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHhccccCcccccceEEEECCCCCEEecCCCCcHHHHHH--HHhcc
Confidence            355678899999999999999999999999965331  1 122    25654 3456767776  33443321  111  


Q ss_pred             ---CC-ceeEEEecceecCcCCCCccccchhhheeeeccccc---HHHHHHHHHHHHHHH
Q 013856          313 ---DF-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH---YSEVMDIVDCLFVTI  365 (435)
Q Consensus       313 ---g~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~---~~d~m~~~e~l~~~i  365 (435)
                         .+ -|.|++|+|||.|..... +.-||+|+.+|+-..++   --|++.++-+.+..+
T Consensus       159 ~~~~~P~r~~y~g~vfR~e~~q~g-r~REf~Q~giEiiG~~~~~aDaEvi~l~~~~l~~l  217 (487)
T PLN02530        159 KSLSLPLKWFAIGQCWRYERMTRG-RRREHYQWNMDIIGVPGVEAEAELLAAIVTFFKRV  217 (487)
T ss_pred             cccCCCeEEEEEcCEEcCcCCCCC-CccceEEcCeeEeCCCCcchhHHHHHHHHHHHHHc
Confidence               12 389999999999985343 46799999999865432   235666666555443

>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=97.19  E-value=0.0015  Score=67.65  Aligned_cols=108  Identities=19%  Similarity=0.261  Sum_probs=71.6

Q ss_pred             HHHHHHHHHhhcCCeeeecCceeeecCC--C-CCc----ceeee-ccCCCceeec--cChHHHHhhhc--cCCCceeEEE
Q 013856          253 QVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GGS----AVFRL-DYKGQSACLA--QSPQLHKQMSI--CGDFGRVFET  320 (435)
Q Consensus       253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gga----~~F~~-~~~~~~~~L~--~Spql~lq~li--~~g~~rVfeI  320 (435)
                      .|.+.+++.|..+||.||.||++-....  . .|.    ..|.+ +--|+.+.||  ..+++-.-.+-  ...--|.|++
T Consensus         9 ~i~~~i~~~f~~~Gy~~I~tP~lE~~e~~~~~~g~~~~~~~~~f~D~~G~~l~LRpD~T~piaR~~~~~~~~~p~R~~Y~   88 (373)
T PRK12295          9 AAAEALLASFEAAGAVRVDPPILQPAEPFLDLSGEDIRRRIFVTSDENGEELCLRPDFTIPVCRRHIATAGGEPARYAYL   88 (373)
T ss_pred             HHHHHHHHHHHHcCCEEeeCCccccHHHhhhccCchhhcceEEEECCCCCEEeeCCCCcHHHHHHHHHcCCCCCeEEEEE
Confidence            7788999999999999999999965431  1 122    25655 3346667776  33333321110  1224599999


Q ss_pred             ecceecCcCCCCccccchhhheeeeccc-cc---HHHHHHHHHHHHHH
Q 013856          321 GPVFRAEDSYTHRHLCEFTGLDVEMEIK-KH---YSEVMDIVDCLFVT  364 (435)
Q Consensus       321 gp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~---~~d~m~~~e~l~~~  364 (435)
                      |+|||.+..    ..-||+|+.+|.-.. +.   --|++.++-+.+..
T Consensus        89 g~VfR~~~g----r~rEf~Q~GvEiiG~~~~~~aDaEvi~l~~~~L~~  132 (373)
T PRK12295         89 GEVFRQRRD----RASEFLQAGIESFGRADPAAADAEVLALALEALAA  132 (373)
T ss_pred             ccEEECCCC----CCCcceEeeEEeeCCCCCccchHHHHHHHHHHHHH
Confidence            999999832    346999999998663 21   23788887777765

>PLN02678 seryl-tRNA synthetase

Probab=97.06  E-value=0.0011  Score=70.00  Aligned_cols=117  Identities=14%  Similarity=0.186  Sum_probs=70.6

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-CC-------CcceeeeccCCCceeeccC---h--HHHHhhhc-c
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-EG-------GSAVFRLDYKGQSACLAQS---P--QLHKQMSI-C  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-eg-------ga~~F~~~~~~~~~~L~~S---p--ql~lq~li-~  311 (435)
                      ...+++.+|++++++++..+||.||.||.|..... ++       ..+.|.+.--|.+.||.-.   |  -+|....+ -
T Consensus       172 ~ga~L~~AL~~y~ld~~~~~Gy~~V~~P~lv~~~~~~~sG~~~~f~e~my~i~~~~~~~yLi~TaE~~l~~~h~~~~~s~  251 (448)
T PLN02678        172 AGVLLNQALINFGLAFLRKRGYTPLQTPFFMRKDVMAKCAQLAQFDEELYKVTGEGDDKYLIATSEQPLCAYHRGDWIDP  251 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECcccccHHHHhhcCCcccchhcCceecCCCCceeeecccccccChHHhcccCCH
Confidence            44788999999999999999999999999976432 11       1224555322335555432   1  12221111 1


Q ss_pred             CCC-ceeEEEecceecCcCC---C---CccccchhhheeeecccccHHH--HHHHHHHHHHH
Q 013856          312 GDF-GRVFETGPVFRAEDSY---T---HRHLCEFTGLDVEMEIKKHYSE--VMDIVDCLFVT  364 (435)
Q Consensus       312 ~g~-~rVfeIgp~FR~E~s~---t---~rHl~EFt~lE~e~a~~~~~~d--~m~~~e~l~~~  364 (435)
                      ..+ =|++++++|||+|.+.   +   ..-.-+|+++|.. .|.. -++  .....|+|+..
T Consensus       252 ~eLPlr~~~~s~cfR~Eags~G~~~~GL~RvhqF~KvE~f-~~~~-pe~~~s~~~~e~~l~~  311 (448)
T PLN02678        252 KELPIRYAGYSTCFRKEAGSHGRDTLGIFRVHQFEKVEQF-CITS-PNGNESWEMHEEMLKN  311 (448)
T ss_pred             HhCCceeEEeccccccccccCCCcCCcceEEEEEEEEEEE-EEEC-CCchhHHHHHHHHHHH
Confidence            122 3899999999999852   1   2223489999994 4432 233  44445554443

>PLN02837 threonine-tRNA ligase

Probab=97.04  E-value=0.0022  Score=70.55  Aligned_cols=118  Identities=15%  Similarity=0.118  Sum_probs=78.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC---C-----Ccceeeecc-CCCceeeccChH-----HHHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE---G-----GSAVFRLDY-KGQSACLAQSPQ-----LHKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e---g-----ga~~F~~~~-~~~~~~L~~Spq-----l~lq~li~  311 (435)
                      .-.+++..|++++++....+||.||.||.|.....-   |     +.+.|.+.- -+..+.|+.+.+     +|++....
T Consensus       245 ~G~~l~~~L~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sGh~~~~~~~mf~~~~~~~~~y~l~p~~~p~~~~~~~~~~~S  324 (614)
T PLN02837        245 KGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKADLWKTSGHLDFYKENMYDQMDIEDELYQLRPMNCPYHILVYKRKLHS  324 (614)
T ss_pred             hHHHHHHHHHHHHHHHHHHCCCEEEECCccCCHHHHhhcCCcccchhhcccccCCCCceEEECCCCcHHHHHHHhCccCC
Confidence            567899999999999999999999999999764311   1     223555422 234445664443     33332211


Q ss_pred             -CCC-ceeEEEecceecCcCCC---CccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856          312 -GDF-GRVFETGPVFRAEDSYT---HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       312 -~g~-~rVfeIgp~FR~E~s~t---~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i  365 (435)
                       ..+ =|+|++|+|||+|.+..   .-=.-||+|.|.+. |+. .++..+.++.++..+
T Consensus       325 yrdLPlr~~~~~~~~R~E~~g~~~GL~RvreF~~~e~h~-f~~-~~q~~~e~~~~l~~~  381 (614)
T PLN02837        325 YRDLPIRVAELGTVYRYELSGSLHGLFRVRGFTQDDAHI-FCL-EDQIKDEIRGVLDLT  381 (614)
T ss_pred             hhHCCHhhEeecccccCCCCCCCcCcccccceEECeEEE-EeC-HHHHHHHHHHHHHHH
Confidence             022 38999999999998521   22345899999996 876 677777666666543

>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit

Probab=96.95  E-value=0.012  Score=46.31  Aligned_cols=74  Identities=14%  Similarity=0.214  Sum_probs=55.5

Q ss_pred             EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856          107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ  186 (435)
Q Consensus       107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~  186 (435)
                      ++|.|-|.++|...++++|+.|.|.++.+.|++..+..      .+.-..|..|+.|.|.|.+...+.     .+++.|.
T Consensus         2 ~~v~g~v~~i~~tk~g~~~~~L~D~~~~i~~~~f~~~~------~~~~~~l~~g~~v~v~g~v~~~~~-----~~~~~l~   70 (78)
T cd04489           2 VWVEGEISNLKRPSSGHLYFTLKDEDASIRCVMWRSNA------RRLGFPLEEGMEVLVRGKVSFYEP-----RGGYQLI   70 (78)
T ss_pred             EEEEEEEecCEECCCcEEEEEEEeCCeEEEEEEEcchh------hhCCCCCCCCCEEEEEEEEEEECC-----CCEEEEE
Confidence            68999999988633359999999999999999986421      122356999999999999974210     1357888


Q ss_pred             EeEEE
Q 013856          187 IKKLY  191 (435)
Q Consensus       187 v~~i~  191 (435)
                      ++++.
T Consensus        71 v~~i~   75 (78)
T cd04489          71 VEEIE   75 (78)
T ss_pred             EEEEE
Confidence            87764

E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.

>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=96.89  E-value=0.0038  Score=65.58  Aligned_cols=117  Identities=21%  Similarity=0.260  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC---CCcc-------eeeecc-CCCceeec---cCh--HHHHhhhc
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE---GGSA-------VFRLDY-KGQSACLA---QSP--QLHKQMSI  310 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e---gga~-------~F~~~~-~~~~~~L~---~Sp--ql~lq~li  310 (435)
                      -...+..|...+|+-+.+.||.||.||++-....=   .|.+       .|.... -|+.+-||   ++|  -++.+-..
T Consensus        17 d~~~~~~i~~~~~~v~~~yGf~eI~TPifE~telf~r~~Ge~td~v~kemY~F~Dkggr~laLRpe~Tapv~R~~~en~~   96 (429)
T COG0124          17 DMALREYIESTIRKVFESYGFSEIRTPIFEYTELFARKSGEETDVVEKEMYTFKDKGGRSLALRPELTAPVARAVAENKL   96 (429)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEeccCccccchhHhhhccCCcccccccceEEEEeCCCCEEEecccCcHHHHHHHHhccc
Confidence            56778899999999999999999999998543311   1211       233322 46777777   444  23333222


Q ss_pred             cC-CCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          311 CG-DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       311 ~~-g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      .. ---|.|.+|||||.|.....|- -||+||++|....++.   -|++.++.+++..
T Consensus        97 ~~~~p~k~yy~g~vfRyErPQ~GR~-RqF~Q~g~E~iG~~~~~~DAEvi~l~~~~l~~  153 (429)
T COG0124          97 DLPKPLKLYYFGPVFRYERPQKGRY-RQFYQFGVEVIGSDSPDADAEVIALAVEILEA  153 (429)
T ss_pred             cccCCeeEEEecceecCCCCCCCCc-eeeEEcCeEEeCCCCcccCHHHHHHHHHHHHH
Confidence            21 2349999999999999866665 6999999998665421   3677777776664

>PRK04173 glycyl-tRNA synthetase; Provisional

Probab=96.72  E-value=0.0042  Score=65.97  Aligned_cols=30  Identities=13%  Similarity=0.424  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHHHhhc--CCeeeecCceeee
Q 013856          248 FRIQSQVGNIFRQFLLS--ENFVEIHTPKLIA  277 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~--~gF~EV~TP~l~~  277 (435)
                      .++|..|.+++|+.+..  .||.||.||+|..
T Consensus        38 ~~l~~~i~~~~r~~~~~~~~~~~ev~tp~i~~   69 (456)
T PRK04173         38 VELKNNIKRAWWKSFVQEREDVVGIDSPIIMP   69 (456)
T ss_pred             HHHHHHHHHHHHHHHHhccCCEEEEeccccCC
Confidence            47889999999999987  7999999999976

>KOG2784 consensus Phenylalanyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]

Probab=96.70  E-value=0.0021  Score=65.02  Aligned_cols=59  Identities=24%  Similarity=0.363  Sum_probs=44.5

Q ss_pred             HHHHhhhccCCC--ceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHH
Q 013856          303 QLHKQMSICGDF--GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVT  364 (435)
Q Consensus       303 ql~lq~li~~g~--~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~  364 (435)
                      .||.  |.-.||  .|.|.|-+|||||.. +.+||.||.++|--.+-.+ .+-|+|-++++++..
T Consensus       322 mLy~--LAk~~f~p~K~FSIDrVFRNEtv-DaTHLAEFHQVEGviad~gltLgdLig~l~~ff~~  383 (483)
T KOG2784|consen  322 MLYR--LAKKGFKPAKYFSIDRVFRNETV-DATHLAEFHQVEGVIADKGLTLGDLIGILMEFFTK  383 (483)
T ss_pred             HHHH--HHhCCCCcccccchhhhhhcccc-chHHHHHHhhhceeeecCCCcHHHHHHHHHHHHhc
Confidence            5554  224566  589999999999996 8999999999998766432 266788877777654

>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain

Probab=96.65  E-value=0.02  Score=48.10  Aligned_cols=76  Identities=13%  Similarity=0.249  Sum_probs=59.8

Q ss_pred             CCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH--hcCCCCceEEEEEEEecCCccCCCCce
Q 013856          104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV--RSLSNESIVDVIGVVSVPDVEIKGATQ  181 (435)
Q Consensus       104 g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~--~~l~~esiV~V~G~v~~~~~~~~~~t~  181 (435)
                      -..|||.|=|.+.+.++++-+|++|+|+..+|+|++-.+..       ..+  ..+..|+-|.|.|.+..-.     ..|
T Consensus        21 ~~~vwV~GEIs~~~~~~~gh~YftLkD~~a~i~~~~~~~~~-------~~i~~~~l~~G~~V~v~g~~~~y~-----~~G   88 (99)
T PF13742_consen   21 LPNVWVEGEISNLKRHSSGHVYFTLKDEEASISCVIFRSRA-------RRIRGFDLKDGDKVLVRGRVSFYE-----PRG   88 (99)
T ss_pred             cCCEEEEEEEeecEECCCceEEEEEEcCCcEEEEEEEHHHH-------hhCCCCCCCCCCEEEEEEEEEEEC-----CCc
Confidence            47899999999999854467999999999999999986421       222  3689999999999987422     136


Q ss_pred             eEEEEEeEEE
Q 013856          182 QVEVQIKKLY  191 (435)
Q Consensus       182 ~lEI~v~~i~  191 (435)
                      .+.+.|.+|.
T Consensus        89 ~~sl~v~~i~   98 (99)
T PF13742_consen   89 SLSLIVEDID   98 (99)
T ss_pred             EEEEEEEEeE
Confidence            7999988774

>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ

Probab=96.60  E-value=0.019  Score=45.57  Aligned_cols=73  Identities=23%  Similarity=0.309  Sum_probs=55.2

Q ss_pred             EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856          107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ  186 (435)
Q Consensus       107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~  186 (435)
                      |+|.|=|-+.+..|.. +|+.|+|+++.|.|++-....      ......+..||-|.|.|.+..       ..|.+.|.
T Consensus         1 v~v~GeVs~~~~~~GH-vyfsLkD~~a~i~cv~f~~~~------~~~~~~l~~Gd~V~v~G~v~~-------~~G~~ql~   66 (73)
T cd04487           1 VHIEGEVVQIKQTSGP-TIFTLRDETGTVWAAAFEEAG------VRAYPEVEVGDIVRVTGEVEP-------RDGQLQIE   66 (73)
T ss_pred             CEEEEEEeccccCCCC-EEEEEEcCCEEEEEEEEchhc------cCCcCCCCCCCEEEEEEEEec-------CCeEEEEE
Confidence            5789999876444434 788999999999999875421      111246899999999999864       13679999


Q ss_pred             EeEEEEe
Q 013856          187 IKKLYCV  193 (435)
Q Consensus       187 v~~i~vl  193 (435)
                      +.++.+|
T Consensus        67 v~~i~~~   73 (73)
T cd04487          67 VESLEVL   73 (73)
T ss_pred             EeeEEEC
Confidence            9999875

RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.

>PLN02320 seryl-tRNA synthetase

Probab=96.52  E-value=0.0044  Score=66.11  Aligned_cols=118  Identities=18%  Similarity=0.278  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-CC-Cc-------ceeeeccCCCceeeccChH-----HHHhhhcc-
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-EG-GS-------AVFRLDYKGQSACLAQSPQ-----LHKQMSIC-  311 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-eg-ga-------~~F~~~~~~~~~~L~~Spq-----l~lq~li~-  311 (435)
                      ..++..++++++++++..+||.||.||.|..... +| |-       ..|.++  +.++||.-..|     +|....+. 
T Consensus       232 ~a~Le~ALi~f~ld~~~~~Gy~eV~tP~lv~~~l~~~sG~~p~~e~~~~y~ie--~ed~~Li~TaE~Pl~~~~~~~ils~  309 (502)
T PLN02320        232 AVLLEMALVNWTLSEVMKKGFTPLTTPEIVRSSVVEKCGFQPRGDNTQVYSID--GSDQCLIGTAEIPVGGIHMDSILLE  309 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHHhcCCCcccccCceeEEC--CCceEEeecccccccccccccccCH
Confidence            4456678999999999999999999999976542 22 21       123332  46677742222     33332221 


Q ss_pred             CCC-ceeEEEecceecCcCC-C-----CccccchhhheeeecccccHHHHHHHHHHHHHHHhHH
Q 013856          312 GDF-GRVFETGPVFRAEDSY-T-----HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDS  368 (435)
Q Consensus       312 ~g~-~rVfeIgp~FR~E~s~-t-----~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~  368 (435)
                      ..+ =|++++|+|||.|.+. +     .--.-+|+..|... |+. -++..+..++|+..+..-
T Consensus       310 ~dLPlRy~~~s~cFR~EAgs~G~d~rGL~RvhQF~KvE~~i-f~~-peqs~~e~e~ll~~~e~i  371 (502)
T PLN02320        310 SALPLKYVAFSHCFRTEAGAAGAATRGLYRVHQFSKVEMFV-ICR-PEESESFHEELIQIEEDL  371 (502)
T ss_pred             hhCCceeEEeccccccccccCCCcCCCceeeeeeecccEEE-EEC-HHHHHHHHHHHHHHHHHH
Confidence            122 3899999999999651 1     11234899999854 443 577777777777655443

>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]

Probab=96.34  E-value=0.0042  Score=66.28  Aligned_cols=88  Identities=19%  Similarity=0.293  Sum_probs=66.6

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      ++.+.+|++ +.|++|.|+|-|..++..+ .-.-+.|+|+++.++|-+..... +     .-...+..|++|.|+|.|..
T Consensus       202 r~~i~~id~-~ig~tV~I~GeV~qikqT~-GPTVFtltDetg~i~aAAFe~aG-v-----RAyP~IevGdiV~ViG~V~~  273 (715)
T COG1107         202 RTLIDDLDE-MIGKTVRIEGEVTQIKQTS-GPTVFTLTDETGAIWAAAFEEAG-V-----RAYPEIEVGDIVEVIGEVTR  273 (715)
T ss_pred             cccHHHHHh-hcCceEEEEEEEEEEEEcC-CCEEEEEecCCCceehhhhccCC-c-----ccCCCCCCCceEEEEEEEee
Confidence            355777766 9999999999999999987 44556999999999999875432 1     22357999999999999975


Q ss_pred             CCccCCCCceeEEEEEeEEEEee
Q 013856          172 PDVEIKGATQQVEVQIKKLYCVS  194 (435)
Q Consensus       172 ~~~~~~~~t~~lEI~v~~i~vls  194 (435)
                      ..       |.+-|.+..++.|.
T Consensus       274 r~-------g~lQiE~~~me~L~  289 (715)
T COG1107         274 RD-------GRLQIEIEAMEKLT  289 (715)
T ss_pred             cC-------CcEEEeehhhHHhh
Confidence            32       45556666666654

>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=96.24  E-value=0.0098  Score=63.57  Aligned_cols=117  Identities=18%  Similarity=0.195  Sum_probs=86.6

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC-------CCC-Ccceeeecc-CCCceeeccChHHHHhhhc----cC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-------SEG-GSAVFRLDY-KGQSACLAQSPQLHKQMSI----CG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-------~eg-ga~~F~~~~-~~~~~~L~~Spql~lq~li----~~  312 (435)
                      --++++.+|.+.+|+-|++.|..||.-|+|+++.       .+| |.++|.+.. -++++.|+-..|=-.--++    -+
T Consensus        45 ~g~rv~~kI~~iir~em~~~G~~Evl~P~L~p~eLwkEs~r~~~f~~El~~v~drg~~~l~L~PTsEe~it~~~~~~i~S  124 (500)
T COG0442          45 LGLRVLEKIENIIREEMDKIGAQEVLFPTLIPAELWKESGRWEGFGPELFRVKDRGDRPLALRPTSEEVITDMFRKWIRS  124 (500)
T ss_pred             cHHHHHHHHHHHHHHHHHhcCceEEechhcCHHHHHHHhChhhhcchhhEEEEccCCceeeeCCCcHHHHHHHHHHHhhh
Confidence            3578899999999999999999999999999843       133 566788744 5788999866653221111    11


Q ss_pred             --CC-ceeEEEecceecCcC--CCCccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          313 --DF-GRVFETGPVFRAEDS--YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       313 --g~-~rVfeIgp~FR~E~s--~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                        +| =++|+|..+||.|--  ...--.-||+|=|.|-.+.+ .+++....+.++.
T Consensus       125 YkdLPl~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~-~e~a~~~y~~~~~  179 (500)
T COG0442         125 YKDLPLKLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHAD-EEDAEETYEKMLD  179 (500)
T ss_pred             hhhCCcceeeeeeEEeccccCCCCccchheeeecccccccCC-HHHHHHHHHHHHH
Confidence              22 279999999999972  12224579999999999987 8888887777664

>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional

Probab=96.21  E-value=0.033  Score=55.22  Aligned_cols=96  Identities=13%  Similarity=0.068  Sum_probs=64.2

Q ss_pred             hhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CCCcc----eee-e-ccCCCceeec--cChHHHHhhhc-cC
Q 013856          244 NQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EGGSA----VFR-L-DYKGQSACLA--QSPQLHKQMSI-CG  312 (435)
Q Consensus       244 ~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--egga~----~F~-~-~~~~~~~~L~--~Spql~lq~li-~~  312 (435)
                      ++.-+..+..|.+.+++.|...||-+|+||++-....  .++..    .|. + +.-|+.+-||  ..|++-.-.+. ..
T Consensus         3 ~~~~~~~~~~ie~~l~~~f~~~GY~~I~tP~~E~~d~~~~~~~~~~~~~~~~~~~~~Gr~laLRpD~T~~iAR~~a~~~~   82 (272)
T PRK12294          3 NSEQLIALKESETAFLKYFNKADYELVDFSVIEKLDWKQLNHEDLQQMGERSFWQHEHQIYALRNDFTDQLLRYYSMYPT   82 (272)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHcCCeEeeCCcchhHHhhhccccchhhhheeeeecCCCCEEEEcCCCCHHHHHHHHhcCC
Confidence            3445566788899999999999999999999943322  12211    222 2 2246777777  55665552111 12


Q ss_pred             CCceeEEEecceecCcCCCCccccchhhheeeecc
Q 013856          313 DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI  347 (435)
Q Consensus       313 g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~  347 (435)
                      +..|.|.+|+|||++.        +|+|+-+|.-.
T Consensus        83 ~~~Rl~Y~g~VfR~~~--------~~~Q~GvEliG  109 (272)
T PRK12294         83 AATKVAYAGLIIRNNE--------AAVQVGIENYA  109 (272)
T ss_pred             CCceEEEeccEeccCC--------CcceeceEEEC
Confidence            4569999999999875        37888888766

>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase

Probab=96.17  E-value=0.0063  Score=64.02  Aligned_cols=51  Identities=14%  Similarity=0.242  Sum_probs=43.3

Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI  365 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i  365 (435)
                      -|+|+||+|||+|...+.+|+++|.++|.-++..+ ++.|++.+++.|++.+
T Consensus       208 iRIFsIGRVfRrD~~~DaTHl~eFhQlEGLVVdedVSf~DLKgvLe~LLr~L  259 (533)
T TIGR00470       208 LKLFSIDRCFRREQREDRSHLMTYHSASCVVVDEEVSVDDGKAVAEGLLAQF  259 (533)
T ss_pred             eEEEeeeeEEecCCCCCCccCceeeeEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence            59999999999996447799999999998665532 4789999999999887

This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.

>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE)

Probab=96.15  E-value=0.057  Score=42.18  Aligned_cols=72  Identities=17%  Similarity=0.333  Sum_probs=50.6

Q ss_pred             EEEEEeeec----cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856          109 IRGRVHTTR----PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE  184 (435)
Q Consensus       109 v~GrV~~~R----~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE  184 (435)
                      |.|.|.+++    ..|+.++|+.|.|+++.+.+++...      ...+....+..|..|.|.|.+..-.       +..+
T Consensus         2 i~g~v~~~~~~~~k~g~~~~~~~l~D~tg~~~~~~f~~------~~~~~~~~l~~g~~v~v~G~v~~~~-------~~~~   68 (84)
T cd04485           2 VAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPE------TYEKYRDLLKEDALLLVEGKVERRD-------GGLR   68 (84)
T ss_pred             EEEEEEEeEEEEcCCCCEEEEEEEEeCCCeEEEEECHH------HHHHHHHHhcCCCEEEEEEEEEecC-------CceE
Confidence            455554432    3465689999999999999998842      1223456799999999999986421       3477


Q ss_pred             EEEeEEEEe
Q 013856          185 VQIKKLYCV  193 (435)
Q Consensus       185 I~v~~i~vl  193 (435)
                      +.+.++..+
T Consensus        69 l~~~~i~~~   77 (84)
T cd04485          69 LIAERIEDL   77 (84)
T ss_pred             EEeeccccH
Confidence            887776554

The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.

>PRK07373 DNA polymerase III subunit alpha; Reviewed

Probab=96.07  E-value=0.038  Score=58.60  Aligned_cols=86  Identities=15%  Similarity=0.199  Sum_probs=63.5

Q ss_pred             EeccccCCCCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV  169 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v  169 (435)
                      .+.++.....|+.|+|.|.|.++|.    .|+.|+|+.|.|.++.+.+++..+      ..-++...|..+.+|.|+|.+
T Consensus       270 ~~~~l~~~~~~~~v~vaG~I~~ik~~~TKkG~~maf~~leD~tG~ie~vvFp~------~y~~~~~~l~~~~~v~v~G~v  343 (449)
T PRK07373        270 NLSELEEQKEKTKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPK------SYERISELLQVDARLIIWGKV  343 (449)
T ss_pred             CHHHHhcccCCCEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence            3444443345789999999999874    366799999999999999999843      233455679999999999999


Q ss_pred             ecCCccCCCCceeEEEEEeEEEE
Q 013856          170 SVPDVEIKGATQQVEVQIKKLYC  192 (435)
Q Consensus       170 ~~~~~~~~~~t~~lEI~v~~i~v  192 (435)
                      ...+       +.+.|.+.+|.-
T Consensus       344 ~~~~-------~~~~liv~~i~~  359 (449)
T PRK07373        344 DRRD-------DQVQLIVEDAEP  359 (449)
T ss_pred             EecC-------CeEEEEEeEeec
Confidence            6421       246677766643

>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32)

Probab=95.88  E-value=0.13  Score=38.45  Aligned_cols=69  Identities=13%  Similarity=0.174  Sum_probs=50.9

Q ss_pred             EEEEEeeeccCC--CceEEEEEEeCC-eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856          109 IRGRVHTTRPVG--NKLAFVVVRERV-STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV  185 (435)
Q Consensus       109 v~GrV~~~R~~G--~kl~Fl~Lrd~~-~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI  185 (435)
                      |.|.|.+++...  +.++++.|.|++ +.+.|++..+      ....+...+..|++|.|.|.+...       .+...+
T Consensus         2 v~g~v~~~~~~~~~~~~~~~~l~D~~~~~i~~~~~~~------~~~~~~~~~~~g~~v~v~g~v~~~-------~~~~~l   68 (75)
T cd03524           2 IVGIVVAVEEIRTEGKVLIFTLTDGTGGTIRVTLFGE------LAEELENLLKEGQVVYIKGKVKKF-------RGRLQL   68 (75)
T ss_pred             eEEEEEeecccccCCeEEEEEEEcCCCCEEEEEEEch------HHHHHHhhccCCCEEEEEEEEEec-------CCeEEE
Confidence            678888887654  578999999999 9999999853      122344679999999999998642       134666


Q ss_pred             EEeEE
Q 013856          186 QIKKL  190 (435)
Q Consensus       186 ~v~~i  190 (435)
                      .+.++
T Consensus        69 ~~~~~   73 (75)
T cd03524          69 IVESI   73 (75)
T ss_pred             Eeeee
Confidence            66543

RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco

>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32)

Probab=95.87  E-value=0.096  Score=42.97  Aligned_cols=78  Identities=13%  Similarity=0.164  Sum_probs=57.5

Q ss_pred             EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856          107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ  186 (435)
Q Consensus       107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~  186 (435)
                      |++-|+|.++...+..+. +.|.|++|+|-|.+-......+   ......+..|++|.|.|.+..-.       +...|.
T Consensus         2 v~~vG~V~~~~~~~~~~~-~tL~D~TG~I~~~~W~~~~~~~---~~~~~~~~~g~~v~v~G~v~~~~-------g~~ql~   70 (95)
T cd04478           2 VTLVGVVRNVEEQSTNIT-YTIDDGTGTIEVRQWLDDDNDD---SSEVEPIEEGTYVRVFGNLKSFQ-------GKKSIM   70 (95)
T ss_pred             EEEEEEEEeeeEcccEEE-EEEECCCCcEEEEEeCCCCCcc---cccccccccCCEEEEEEEEcccC-------CeeEEE
Confidence            789999999999886655 5899999999999875432100   01235799999999999986421       457788


Q ss_pred             EeEEEEeec
Q 013856          187 IKKLYCVSR  195 (435)
Q Consensus       187 v~~i~vls~  195 (435)
                      +..+..+..
T Consensus        71 i~~i~~v~d   79 (95)
T cd04478          71 AFSIRPVTD   79 (95)
T ss_pred             EEEEEEeCC
Confidence            888877654

RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam

>TIGR00415 serS_MJ seryl-tRNA synthetase, Methanococcus jannaschii family

Probab=95.82  E-value=0.039  Score=58.97  Aligned_cols=117  Identities=16%  Similarity=0.083  Sum_probs=76.7

Q ss_pred             hHHHHHHHHHHHHHHHhh-cCCeeeecCceeeecCCC---C----Cc-ceeeeccC------------------------
Q 013856          246 GIFRIQSQVGNIFRQFLL-SENFVEIHTPKLIAGSSE---G----GS-AVFRLDYK------------------------  292 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~-~~gF~EV~TP~l~~~~~e---g----ga-~~F~~~~~------------------------  292 (435)
                      ..+++..++.+.+++++. +.||.||.+|.|++...-   |    -. +.|.|..-                        
T Consensus       221 ~ga~L~rAL~~~~ld~~~~k~Gy~ev~fP~LIp~e~l~k~ghl~gF~~e~y~Vt~~~~d~d~~~~f~~~~~~~~eipi~~  300 (520)
T TIGR00415       221 KITALFRALEEFFIEEIVKKIGFQECLFPKLIPLDIMNKMRYLEGLPEGMYYCCAPKRDPELFEEFKNELIIKKEIPIDK  300 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCeEEeCCcEecHHHHcccCCCCCCchhheEEecCCCCcchhhcccccccccccccccc
Confidence            556778888888876664 569999999999875421   1    11 13444210                        


Q ss_pred             -----C-CceeeccChHHHHhhhcc------CCC-ceeEEEe-cceecCcC--CCCccccchhhheeeecccccHHHHHH
Q 013856          293 -----G-QSACLAQSPQLHKQMSIC------GDF-GRVFETG-PVFRAEDS--YTHRHLCEFTGLDVEMEIKKHYSEVMD  356 (435)
Q Consensus       293 -----~-~~~~L~~Spql~lq~li~------~g~-~rVfeIg-p~FR~E~s--~t~rHl~EFt~lE~e~a~~~~~~d~m~  356 (435)
                           . ..++|+-+.+..+=.+..      .++ -++|++. +|||.|..  ++..=+-||.|.|+-. +.+ .++..+
T Consensus       301 L~~~le~~~~vL~PTSE~ply~~~a~~Ils~~dLPlk~~~~s~~CFR~EaGstrGL~RvhEF~kvE~v~-~~t-pEea~e  378 (520)
T TIGR00415       301 LKNGIKDPGYVIAPAQCEPFYQFFEGEVIDAEDKPIKFFDRSGWTYRWEAGGAKGLDRVHEFLRVECVW-IAE-PEETEE  378 (520)
T ss_pred             ccccccCCceEEeCccHHHHHHHHhccccChhhCCeeEEEEecCeEeCCCCCCCCCceeeEEEEEEEEE-EeC-HHHHHH
Confidence                 1 156687776655532222      233 3788945 79999983  3444456999999977 665 788888


Q ss_pred             HHHHHHHH
Q 013856          357 IVDCLFVT  364 (435)
Q Consensus       357 ~~e~l~~~  364 (435)
                      ..++++..
T Consensus       379 ~~e~mle~  386 (520)
T TIGR00415       379 IRDKTLEL  386 (520)
T ss_pred             HHHHHHHH
Confidence            88887754

The seryl-tRNA synthetases from a few of the Archaea, represented by this model, are very different from the set of mutually more closely related seryl-tRNA synthetases from Eubacteria, Eukaryotes, and other Archaea. Although distantly homologous, the present set differs enough not to be recognized by the pfam model tRNA-synt_2b that recognizes the remainder of seryl-tRNA synthetases among oither class II amino-acyl tRNA synthetases.

>PRK00960 seryl-tRNA synthetase; Provisional

Probab=95.77  E-value=0.016  Score=62.24  Aligned_cols=116  Identities=15%  Similarity=0.133  Sum_probs=72.0

Q ss_pred             hHHHHHHHHHHHHHHHh-hcCCeeeecCceeeecCC---CCC-----cceeeeccCC--Cc------eeecc--------
Q 013856          246 GIFRIQSQVGNIFRQFL-LSENFVEIHTPKLIAGSS---EGG-----SAVFRLDYKG--QS------ACLAQ--------  300 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl-~~~gF~EV~TP~l~~~~~---egg-----a~~F~~~~~~--~~------~~L~~--------  300 (435)
                      .-.++...+.+++++.+ ...||.||-||.|.+...   .|-     .+.|.+.-++  .+      .||..        
T Consensus       221 ~Ga~L~~aL~~~i~d~~~~k~Gyeev~~P~Li~~ell~ksGhl~~F~e~my~V~~~~~d~e~~~~~~~~l~~T~Evpl~~  300 (517)
T PRK00960        221 PMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLEVMYKMRYLEGLPEGMYYVCPPKRDPEYFEEFVDEMMVKKEVPIEK  300 (517)
T ss_pred             hHHHHHHHHHHHHHHhhHhhcCCeEEECCcccCHHHHhhcCCccCChhhceEeeccccccccccchhhhccccccccccc
Confidence            45678888999998874 556999999999987431   111     1135443211  00      23221        


Q ss_pred             --------------C--h---HHHHhhhccCCCc---eeEE-EecceecCc--CCCCccccchhhheeeecccccHHHHH
Q 013856          301 --------------S--P---QLHKQMSICGDFG---RVFE-TGPVFRAED--SYTHRHLCEFTGLDVEMEIKKHYSEVM  355 (435)
Q Consensus       301 --------------S--p---ql~lq~li~~g~~---rVfe-Igp~FR~E~--s~t~rHl~EFt~lE~e~a~~~~~~d~m  355 (435)
                                    +  |   .+|.... ...-+   |+|+ .|+|||+|.  .++..=.-||+|.|.- .|+. .+++.
T Consensus       301 ~~~~L~~~~yvLrPa~Cp~~y~~~~~~i-ls~rdLPLrl~e~sG~cFR~EsGs~~GL~RV~eF~kvE~h-~f~t-pEqs~  377 (517)
T PRK00960        301 LKEKLRDPGYVLAPAQCEPFYQFFQGET-VDVDELPIKFFDRSGWTYRWEGGGAHGLERVNEFHRIEIV-WLGT-PEQVE  377 (517)
T ss_pred             cccccccccccccccCcHHHHHHHhCCc-CChhhCCHHHhhccCCceeCCCCCCCCCcccceeEEEEEE-EEeC-HHHHH
Confidence                          1  1   1222222 22222   7899 669999996  2333345699999997 6765 78899


Q ss_pred             HHHHHHHHH
Q 013856          356 DIVDCLFVT  364 (435)
Q Consensus       356 ~~~e~l~~~  364 (435)
                      +..++++.+
T Consensus       378 ee~e~ll~~  386 (517)
T PRK00960        378 EIRDELLKY  386 (517)
T ss_pred             HHHHHHHHH
Confidence            988888844

>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32)

Probab=95.62  E-value=0.082  Score=43.71  Aligned_cols=74  Identities=22%  Similarity=0.311  Sum_probs=54.0

Q ss_pred             EEEEEEEeeecc--CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856          107 VLIRGRVHTTRP--VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE  184 (435)
Q Consensus       107 V~v~GrV~~~R~--~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE  184 (435)
                      ++|.|.|.+.+.  .|.. +|+.|.|+++.|.|++.....    .+-.....|..||.|.|.|.+..-         + .
T Consensus         1 ~~v~GeVs~~~~~~~sGH-~yFtlkD~~~~i~cv~f~~~g----~~~~~~~~l~~Gd~V~v~G~v~~y---------~-q   65 (91)
T cd04482           1 YRVTGKVVEEPRTIEGGH-VFFKISDGTGEIDCAAYEPTK----EFRDVVRLLIPGDEVTVYGSVRPG---------T-T   65 (91)
T ss_pred             CEEEEEEeCCeecCCCCC-EEEEEECCCcEEEEEEECccc----ccccccCCCCCCCEEEEEEEEecC---------C-E
Confidence            379999998754  3425 788999999999999886431    111234579999999999988532         1 5


Q ss_pred             EEEeEEEEeec
Q 013856          185 VQIKKLYCVSR  195 (435)
Q Consensus       185 I~v~~i~vls~  195 (435)
                      |.++++.+++-
T Consensus        66 l~ve~l~~~gl   76 (91)
T cd04482          66 LNLEKLRVIRL   76 (91)
T ss_pred             EEEEEEEECCC
Confidence            88888887654

RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende

>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1)

Probab=95.24  E-value=0.42  Score=37.45  Aligned_cols=64  Identities=13%  Similarity=0.197  Sum_probs=48.1

Q ss_pred             cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeec
Q 013856          118 PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSR  195 (435)
Q Consensus       118 ~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~  195 (435)
                      ..|+.++++.|.|+++.+.+++.....       .....+..|.+|.|.|.+..-       .+..+|.+.++..+..
T Consensus        15 k~g~~~~~~~l~D~tg~i~~~~f~~~~-------~~~~~l~~g~~v~v~G~v~~~-------~~~~~l~~~~i~~l~~   78 (83)
T cd04492          15 KNGKPYLALTLQDKTGEIEAKLWDASE-------EDEEKFKPGDIVHVKGRVEEY-------RGRLQLKIQRIRLVTE   78 (83)
T ss_pred             cCCCcEEEEEEEcCCCeEEEEEcCCCh-------hhHhhCCCCCEEEEEEEEEEe-------CCceeEEEEEEEECCc
Confidence            346679999999999999999974311       224679999999999999641       1347888888876643

Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.

>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70)

Probab=94.98  E-value=0.25  Score=41.72  Aligned_cols=86  Identities=14%  Similarity=0.130  Sum_probs=58.9

Q ss_pred             eccccCCCCCCEEEEEEEEee---ecc------CCCceEEEEEEeC-CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856           95 VGALNGSLKDQEVLIRGRVHT---TRP------VGNKLAFVVVRER-VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD  164 (435)
Q Consensus        95 i~~l~~~~~g~~V~v~GrV~~---~R~------~G~kl~Fl~Lrd~-~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~  164 (435)
                      |.+|.+..  ..++|+|||.+   +|.      .| ++.-++|+|. ++.|+|.+-..      ...+|...|..|+++.
T Consensus         2 I~~L~p~~--~~~~I~~rV~~k~~~~~f~~~~~~g-~~~~~~l~De~~~~I~~t~~~~------~~~~f~~~l~eG~vy~   72 (104)
T cd04474           2 ISSLNPYQ--NKWTIKARVTNKSDIRTWSNARGEG-KLFSFDLLDEDGGEIRATFFND------AVDKFYDLLEVGKVYY   72 (104)
T ss_pred             hhHccCCC--CcEEEEEEEeeccccccccCCCCCc-EEEEEEEEECCCCEEEEEEehH------HHHHhhcccccccEEE
Confidence            34555433  35889999974   332      25 7788999999 89999999742      2345777899999999


Q ss_pred             EEEEEecCCcc-CCCCceeEEEEEeE
Q 013856          165 VIGVVSVPDVE-IKGATQQVEVQIKK  189 (435)
Q Consensus       165 V~G~v~~~~~~-~~~~t~~lEI~v~~  189 (435)
                      |.|--+++..+ -+....++||....
T Consensus        73 i~~~~V~~a~~~y~~~~~~yeI~f~~   98 (104)
T cd04474          73 ISKGSVKVANKKFNTLKNDYEITFNR   98 (104)
T ss_pred             EeccEEeeccccCCCCCCcEEEEECC
Confidence            99865554422 23333568887764

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct

>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=94.96  E-value=0.056  Score=54.99  Aligned_cols=109  Identities=22%  Similarity=0.288  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C---C-CCcceeee-ccCCCceeeccChHHHHhhhccCCC---
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S---E-GGSAVFRL-DYKGQSACLAQSPQLHKQMSICGDF---  314 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~---e-gga~~F~~-~~~~~~~~L~~Spql~lq~li~~g~---  314 (435)
                      -+|...++++.++.-|++-|-.+|.-|+|.+..    +   + -|++.|.+ |--|+.++|+-.-|=-.-.+|+.-.   
T Consensus        51 g~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~~LWekTgRw~~~gsEl~rl~Dr~gkq~cL~pThEE~iT~lmat~~~ls  130 (457)
T KOG2324|consen   51 GLRVLNKLCRLLDNEMQSGGAQKISLPILSSKELWEKTGRWDAMGSELFRLHDRKGKQMCLTPTHEEDITALMATYIPLS  130 (457)
T ss_pred             hHHHHHHHHHHHHHHHHhccCeeEeecccChHHHHHhcCcccccchhheEeeccCCCEeccCCchHHHHHHHHHhcCccc
Confidence            356778899999999999999999999997643    1   2 26788988 4477888887544433322222211   


Q ss_pred             -----ceeEEEecceecCcC--CCCccccchhhheeeecccccHHHHHH
Q 013856          315 -----GRVFETGPVFRAEDS--YTHRHLCEFTGLDVEMEIKKHYSEVMD  356 (435)
Q Consensus       315 -----~rVfeIgp~FR~E~s--~t~rHl~EFt~lE~e~a~~~~~~d~m~  356 (435)
                           =+||+||+-||+|--  .+.----||.|=|+|- |..+-++.|.
T Consensus       131 ykqlPi~vYQigrKfRDElrpRfGLlRgREFlMKDmYs-Fd~~~etA~q  178 (457)
T KOG2324|consen  131 YKQLPIRVYQIGRKFRDELRPRFGLLRGREFLMKDMYS-FDSDEETAQQ  178 (457)
T ss_pred             cccCcEEeeeechhhhhccCccccchhhHHHHHhhhhc-ccCCHHHHHH
Confidence                 279999999999951  1222336999999985 3333444443

>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1)

Probab=94.77  E-value=0.38  Score=39.84  Aligned_cols=76  Identities=17%  Similarity=0.192  Sum_probs=52.1

Q ss_pred             EEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCC-------------HHH-HHHHhcCCCCceEEEEEEEecCCc
Q 013856          109 IRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVS-------------KEM-VRFVRSLSNESIVDVIGVVSVPDV  174 (435)
Q Consensus       109 v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~-------------~~~-~~~~~~l~~esiV~V~G~v~~~~~  174 (435)
                      |-|+|.+++..... .-+.|.|++|.|-|++=......+             ..| .+....+..|++|.|.|.+..-. 
T Consensus         2 ivG~V~sv~~~~~~-~~~tLdDgTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~fr-   79 (92)
T cd04483           2 ILGTVVSRRERETF-YSFGVDDGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYR-   79 (92)
T ss_pred             eEEEEEEEEecCCe-EEEEEecCCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEeccC-
Confidence            67999999988745 456899999999999865422000             001 02345699999999999996421 


Q ss_pred             cCCCCceeEEEEEeEEEE
Q 013856          175 EIKGATQQVEVQIKKLYC  192 (435)
Q Consensus       175 ~~~~~t~~lEI~v~~i~v  192 (435)
                            +...|.++.++.
T Consensus        80 ------g~~ql~i~~~~~   91 (92)
T cd04483          80 ------GEREINASVVYK   91 (92)
T ss_pred             ------CeeEEEEEEEEe
Confidence                  456677776653

Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.

>KOG1936 consensus Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=94.76  E-value=0.2  Score=52.22  Aligned_cols=102  Identities=15%  Similarity=0.226  Sum_probs=65.0

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC-CCC--Ccc---eeeeccCC-C----ceeeccChHHHHhhhccCC
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-SEG--GSA---VFRLDYKG-Q----SACLAQSPQLHKQMSICGD  313 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~eg--ga~---~F~~~~~~-~----~~~L~~Spql~lq~li~~g  313 (435)
                      -.-+.+|..|++.|++-|..+|...|+||..---. .-|  |-+   .+-+..-| .    .+=|+++=-=|+-|==+..
T Consensus        71 p~qm~lRe~if~~i~~vFkrhGa~~iDTPVFElkeiL~gKYGEdskLiYdlkDQGGEl~SLRYDLTVPfARylAmNki~s  150 (518)
T KOG1936|consen   71 PEQMALREKIFSTIKEVFKRHGAETIDTPVFELKEILTGKYGEDSKLIYDLKDQGGELCSLRYDLTVPFARYLAMNKITS  150 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCeeccccchhHHHHHhhhcccccceeEehhhcCCcEEEeecccccHHHHHHHHccccc
Confidence            35678899999999999999999999999862211 001  222   22222122 1    2224444444544321222


Q ss_pred             CceeEEEecceecCc-CCCCccccchhhheeeecc
Q 013856          314 FGRVFETGPVFRAED-SYTHRHLCEFTGLDVEMEI  347 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~-s~t~rHl~EFt~lE~e~a~  347 (435)
                      + +-|.|+++||-.. ..|.--.-||.||||-+|.
T Consensus       151 i-kRy~iAkVyRRd~P~mtrGR~REFYQcDFDIAG  184 (518)
T KOG1936|consen  151 I-KRYHIAKVYRRDQPAMTRGRYREFYQCDFDIAG  184 (518)
T ss_pred             c-eeeeEEEEEeccCchhhchhhhhhhccCccccc
Confidence            3 4599999999876 3455567899999998886

>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=94.70  E-value=0.11  Score=54.58  Aligned_cols=114  Identities=15%  Similarity=0.226  Sum_probs=69.6

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--------eeeeccCCCceeeccChHHHH-----hhhcc-
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--------VFRLDYKGQSACLAQSPQLHK-----QMSIC-  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--------~F~~~~~~~~~~L~~Spql~l-----q~li~-  311 (435)
                      .+.++--++++++=++..++||.|+.+|.|+...+.-|..        .|.+.  +.++||.-.-+.-+     ...+- 
T Consensus       172 ~~a~L~rAL~~f~ld~~~~~Gf~e~~~P~lv~~e~m~gtgqlpkf~e~~y~v~--~~~~~LipTaEvpl~~l~~~Eil~~  249 (429)
T COG0172         172 KGARLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGTGQLPKFEEDLYKVE--DPDLYLIPTAEVPLTNLHRDEILDE  249 (429)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCceEeeCceeecHHHhhccCCCCCCcccceEec--CCCEEEEecchhhhHHhhccccccc
Confidence            4556667788888888889999999999998755433322        23332  23678876654433     33232 


Q ss_pred             CCC-ceeEEEecceecCcCCC---C---ccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          312 GDF-GRVFETGPVFRAEDSYT---H---RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       312 ~g~-~rVfeIgp~FR~E~s~t---~---rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      ..+ -+.+-.+||||.|.+..   .   .-.-+|..+|.- .|+. -++-....|+|+.
T Consensus       250 ~~LP~k~~~~S~cFR~EAGs~GrdtrGliRvHQF~KVE~v-~~~~-Pe~S~~~~E~m~~  306 (429)
T COG0172         250 EDLPIKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELV-VITK-PEESEEELEEMLG  306 (429)
T ss_pred             ccCCeeeEEEChhhhcccccccccccceeeeeeeeeEEEE-EEeC-cchhHHHHHHHHH
Confidence            223 36777899999996421   1   123489998863 2332 4444444455544

>PRK07374 dnaE DNA polymerase III subunit alpha; Validated

Probab=94.60  E-value=0.17  Score=59.48  Aligned_cols=87  Identities=14%  Similarity=0.208  Sum_probs=63.5

Q ss_pred             EeccccCCCCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV  169 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v  169 (435)
                      .+.++.....|..|+|.|.|.++|.    .|+.|+|+.|.|.++.+.+++...      ...++...|..|.+|.|+|.|
T Consensus       990 ~~~~l~~~~~~~~v~v~g~i~~~k~~~Tk~G~~maf~~leD~tg~~e~vvFp~------~y~~~~~~l~~~~~~~v~g~v 1063 (1170)
T PRK07374        990 SLSSLEEQPDKAKVSAIAMIPEMKQVTTRKGDRMAILQLEDLTGSCEAVVFPK------SYERLSDHLMTDTRLLVWAKV 1063 (1170)
T ss_pred             CHHHHhcccCCCEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence            3444433345889999999999864    366799999999999999999853      233445679999999999999


Q ss_pred             ecCCccCCCCceeEEEEEeEEEEe
Q 013856          170 SVPDVEIKGATQQVEVQIKKLYCV  193 (435)
Q Consensus       170 ~~~~~~~~~~t~~lEI~v~~i~vl  193 (435)
                      ...+       +.+.|.+.++.-+
T Consensus      1064 ~~~~-------~~~~~~~~~i~~l 1080 (1170)
T PRK07374       1064 DRRD-------DRVQLIIDDCREI 1080 (1170)
T ss_pred             EecC-------CeEEEEEeeeecH
Confidence            6421       2466777666543

>PF04076 BOF: Bacterial OB fold (BOF) protein; InterPro: IPR005220 Proteins in this entry have an OB-fold fold (oligonucleotide/oligosaccharide binding motif)

Probab=94.58  E-value=0.22  Score=42.31  Aligned_cols=78  Identities=13%  Similarity=0.224  Sum_probs=51.1

Q ss_pred             EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEecC
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~~  172 (435)
                      .+.++.....+..|+|.|+|.+.-..- +   |.++|+++.|++-++...         |. ..+++++.|.|.|.|-+.
T Consensus        24 TV~~a~~~~Dd~~V~L~G~Iv~~l~~d-~---Y~F~D~TG~I~VeId~~~---------w~g~~vt~~~~Vri~GeVDk~   90 (103)
T PF04076_consen   24 TVAQAKNAKDDTPVTLEGNIVKQLGDD-K---YLFRDATGEIEVEIDDDV---------WRGQTVTPDDKVRISGEVDKD   90 (103)
T ss_dssp             -HHHHTTS-SSEEEEEEEEEEEEEETT-E---EEEEETTEEEEEE--GGG---------STT----TTSEEEEEEEEEEE
T ss_pred             eHHHHhhCcCCCeEEEEEEEEEEecCC-E---EEEECCCCcEEEEEChhh---------cCCcccCCCCEEEEEEEEeCC
Confidence            444555567789999999987754322 3   689999999999987531         22 358999999999999743


Q ss_pred             CccCCCCceeEEEEEeEEE
Q 013856          173 DVEIKGATQQVEVQIKKLY  191 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~  191 (435)
                      .       ...+|.|..|.
T Consensus        91 ~-------~~~~IdV~~I~  102 (103)
T PF04076_consen   91 W-------NKTEIDVDRIE  102 (103)
T ss_dssp             T-------TEEEEEEEEEE
T ss_pred             C-------CceEEEEEEEE
Confidence            2       24778777764

Analysis of the predicted nucleotide-binding site of the OB-fold suggests that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localise to the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesised for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the OB-fold ligand-binding site may be associated with the presence of members in mobile genetic elements and their potential role in bacterial pathogenicity [].; PDB: 1NNX_A.

>PRK05673 dnaE DNA polymerase III subunit alpha; Validated

Probab=94.25  E-value=0.19  Score=59.04  Aligned_cols=88  Identities=20%  Similarity=0.315  Sum_probs=65.4

Q ss_pred             EeccccCCCCCCEEEEEEEEeeeccC----CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRPV----GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV  169 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~~----G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v  169 (435)
                      .+.++.....|..|.+.|-|.++|..    |+.++|+.|.|.++.+.+++..+      ..-++...|..|++|.|+|.|
T Consensus       967 ~~~~l~~~~~g~~V~v~G~I~~vk~~~TKkG~~mafltLeD~TG~iEvviFp~------~ye~~~~~L~~g~iV~V~GkV 1040 (1135)
T PRK05673        967 RLADLEPTEGGSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSE------ALEKYRDLLEEDRIVVVKGQV 1040 (1135)
T ss_pred             CHHHHhccccCceEEEEEEEEEEEecccCCCCeEEEEEEEeCCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence            34444333458899999999998654    66799999999999999999843      233456679999999999999


Q ss_pred             ecCCccCCCCceeEEEEEeEEEEee
Q 013856          170 SVPDVEIKGATQQVEVQIKKLYCVS  194 (435)
Q Consensus       170 ~~~~~~~~~~t~~lEI~v~~i~vls  194 (435)
                      ...+       +.+.|.++++.-+.
T Consensus      1041 e~~~-------~~~qlii~~I~~L~ 1058 (1135)
T PRK05673       1041 SFDD-------GGLRLTAREVMDLE 1058 (1135)
T ss_pred             EecC-------CeEEEEEeecccHH
Confidence            6421       34677777776543

>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]

Probab=94.00  E-value=0.12  Score=55.03  Aligned_cols=29  Identities=24%  Similarity=0.597  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHhhc--CCeeeecCceeee
Q 013856          249 RIQSQVGNIFRQFLLS--ENFVEIHTPKLIA  277 (435)
Q Consensus       249 ~~rs~i~~~~R~fl~~--~gF~EV~TP~l~~  277 (435)
                      .++..|.++.|++|-.  .+++||+||+|.+
T Consensus        41 ~LK~nI~~~Wrk~fV~~~e~~~eIdtpii~p   71 (558)
T COG0423          41 ELKNNIKEAWRKSFVTEREDVVEIDTPIILP   71 (558)
T ss_pred             HHHHHHHHHHHHHHeeccCCeEEecccccCc
Confidence            5678899999999975  5899999999976

>PRK05672 dnaE2 error-prone DNA polymerase; Validated

Probab=93.69  E-value=0.3  Score=56.98  Aligned_cols=86  Identities=15%  Similarity=0.117  Sum_probs=63.9

Q ss_pred             cccCCCCCCEEEEEEEEeeeccC--CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc
Q 013856           97 ALNGSLKDQEVLIRGRVHTTRPV--GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV  174 (435)
Q Consensus        97 ~l~~~~~g~~V~v~GrV~~~R~~--G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~  174 (435)
                      ++.....|..|+|+|.|..++..  .++|+|+.|-|.++.+.+++..+      ..-++...|..|+++.|+|.+...  
T Consensus       946 ~l~~~~~~~~v~v~g~i~~~~~~~TkkGmaf~~leD~~g~~e~~ifp~------~~~~~~~~l~~~~~~~v~g~v~~~-- 1017 (1046)
T PRK05672        946 ELLDVEDGRRVRVAGVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPG------LWERQRREALGARLLLVRGRVQNA-- 1017 (1046)
T ss_pred             HHhhccCCCEEEEEEEEEEEEEecCCCceEEEEEecCCCCEEEEECHH------HHHHHHHHhccCCEEEEEEEEEec--
Confidence            44433467889999999987664  33499999999999999999843      223445669999999999999642  


Q ss_pred             cCCCCceeEEEEEeEEEEeec
Q 013856          175 EIKGATQQVEVQIKKLYCVSR  195 (435)
Q Consensus       175 ~~~~~t~~lEI~v~~i~vls~  195 (435)
                           .+.+.|.+.++.-+..
T Consensus      1018 -----~~~~~~~~~~i~~~~~ 1033 (1046)
T PRK05672       1018 -----EGVRHLVADRLEDLSP 1033 (1046)
T ss_pred             -----CCeEEEEEeeeechHH
Confidence                 1346788887765543

>PRK06920 dnaE DNA polymerase III DnaE; Reviewed

Probab=93.66  E-value=0.38  Score=56.41  Aligned_cols=86  Identities=15%  Similarity=0.255  Sum_probs=63.3

Q ss_pred             EeccccCCCCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV  169 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v  169 (435)
                      .+.++.. ..|..|+|.|.|.++|.    .|+.|+|+.|.|.++.+.+++..+      ..-++...|..+.+|.|+|.+
T Consensus       934 ~~~~l~~-~~~~~v~v~g~i~~~~~~~tk~g~~maf~~leD~tg~~e~~vFp~------~y~~~~~~l~~~~~~~v~G~v 1006 (1107)
T PRK06920        934 SLAQAMR-HKKKVQRAIVYITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPE------TYIHFSDKLQEGAIVLVDGTI 1006 (1107)
T ss_pred             CHHHHhh-cCCCEEEEEEEEEEeEeecCCCCCeEEEEEEeeCCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence            3444432 45789999999999864    366899999999999999999843      233455679999999999999


Q ss_pred             ecCCccCCCCceeEEEEEeEEEEe
Q 013856          170 SVPDVEIKGATQQVEVQIKKLYCV  193 (435)
Q Consensus       170 ~~~~~~~~~~t~~lEI~v~~i~vl  193 (435)
                      ...+       +...|.+.++.-+
T Consensus      1007 ~~~~-------~~~~~~~~~i~~l 1023 (1107)
T PRK06920       1007 ELRN-------HKLQWIVNGLYPL 1023 (1107)
T ss_pred             EecC-------CcEEEEEeecccH
Confidence            6421       3466777666443

>TIGR00156 conserved hypothetical protein TIGR00156

Probab=93.53  E-value=0.52  Score=41.42  Aligned_cols=79  Identities=13%  Similarity=0.247  Sum_probs=57.1

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh-cCCCCceEEEEEEEec
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR-SLSNESIVDVIGVVSV  171 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~-~l~~esiV~V~G~v~~  171 (435)
                      +.+.++.....+..|++.|.|...-..- .   |.+||++++|.+-++..         .|.. .+++++-|.|.|.|-+
T Consensus        46 ~tV~~a~~~~Ddt~V~L~G~Iv~~l~~d-~---Y~F~D~TG~I~VeId~~---------~w~G~~v~p~d~V~I~GeVDk  112 (126)
T TIGR00156        46 MTVDFAKSMHDGASVTLRGNIISHIGDD-R---YVFRDKSGEINVVIPAA---------VWNGREVQPKDMVNISGSLDK  112 (126)
T ss_pred             EeHHHHhhCCCCCEEEEEEEEEEEeCCc-e---EEEECCCCCEEEEECHH---------HcCCCcCCCCCEEEEEEEECC
Confidence            4555555567799999999998754332 2   78999999999988742         2443 5889999999999964


Q ss_pred             CCccCCCCceeEEEEEeEEE
Q 013856          172 PDVEIKGATQQVEVQIKKLY  191 (435)
Q Consensus       172 ~~~~~~~~t~~lEI~v~~i~  191 (435)
                      .-       ...||-|..|.
T Consensus       113 ~~-------~~~~IdV~~I~  125 (126)
T TIGR00156       113 KS-------APAEVDVTHIQ  125 (126)
T ss_pred             CC-------CCeEEEEEEEE
Confidence            21       23677777664

As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae.

>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit

Probab=93.48  E-value=1.2  Score=35.69  Aligned_cols=57  Identities=23%  Similarity=0.288  Sum_probs=44.3

Q ss_pred             EEEEEEEeeecc--CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH--HHHhcCCCCceEEEEEEEec
Q 013856          107 VLIRGRVHTTRP--VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV--RFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus       107 V~v~GrV~~~R~--~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~--~~~~~l~~esiV~V~G~v~~  171 (435)
                      |.++|-|.++|.  .| +- |+.|-|.++++.+++....      ..  ++...|..+.+|.|+|.+..
T Consensus         2 v~i~GiI~~v~~TK~g-~~-~~~leD~~G~~Ev~~F~~~------~~~~~~~~~l~~d~~v~v~g~v~~   62 (79)
T cd04490           2 VSIIGMVNDVRSTKNG-HR-IVELEDTTGRITVLLTKDK------EELFEEAEDILPDEVIGVSGTVSK   62 (79)
T ss_pred             EEEEEEEeEEEEcCCC-CE-EEEEECCCCEEEEEEeCch------hhhhhhhhhccCCCEEEEEEEEec
Confidence            578888888862  24 34 9999999999999998542      22  45567999999999999843

PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.

>PF10451 Stn1: Telomere regulation protein Stn1; InterPro: IPR018856 The budding yeast protein Stn1 is a DNA-binding protein which has specificity for telomeric DNA

Probab=93.38  E-value=0.28  Score=48.23  Aligned_cols=75  Identities=17%  Similarity=0.229  Sum_probs=52.8

Q ss_pred             CEEEEEEEEeeeccC----CCceEEEEEEeCCe--EEEEEEeeCCCC-CCHHHHHHHhcCCCCceEEEEEEEecCCccCC
Q 013856          105 QEVLIRGRVHTTRPV----GNKLAFVVVRERVS--TVQCLATVKPDS-VSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK  177 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~----G~kl~Fl~Lrd~~~--~iQvv~~~~~~~-~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~  177 (435)
                      +.|.|.|.|..+.-.    . +-+|+.|-|++|  .|.|++..+... .+.    -+..+ .|++|.|.|.+..      
T Consensus        67 ~~v~i~G~Vv~~~~~~~~~~-~~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l----~~~~~-~G~~V~VkG~vsr------  134 (256)
T PF10451_consen   67 RWVRIVGVVVGIDYKWIENE-DRIILTIDDSSGANTIECKCSKSSYLSMGL----PINDL-IGKVVEVKGTVSR------  134 (256)
T ss_dssp             -EEEEEEEEEEEEEEE-BBT-CEEEEEEE-SSCS-EEEEEEEHHHHHCCCH----HCTT--TT-EEEEEEEEES------
T ss_pred             EEEEEEEEEEEEEEEeeccc-ceEEEEEeCCCCceeEEEEEEcccccccCC----CccCC-CCcEEEEEEEEcc------
Confidence            578999999998754    4 568899999998  899999864210 111    12345 9999999999972      


Q ss_pred             CCceeEEEEEeEEEEee
Q 013856          178 GATQQVEVQIKKLYCVS  194 (435)
Q Consensus       178 ~~t~~lEI~v~~i~vls  194 (435)
                         +..+|.+..|.++.
T Consensus       135 ---~~~ql~ve~i~~~~  148 (256)
T PF10451_consen  135 ---NERQLDVERIELVR  148 (256)
T ss_dssp             ---SSEEEEEEEEEEET
T ss_pred             ---CcEEEEEEEEEccC
Confidence               35889999988764

Structural profiling has predicted an OB-fold []. This entry represents the N-terminal part of the molecule, which adopts the OB fold. Protection of telomeres by multiple proteins with OB-fold domains is conserved in eukaryotic evolution [].; PDB: 3KF6_A 3KF8_A.

>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed

Probab=93.33  E-value=0.34  Score=52.78  Aligned_cols=112  Identities=17%  Similarity=0.234  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCC--C----CCc-ceeee-ccC-CCceeeccC--hHHHHhhhcc-CCC--cee
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSS--E----GGS-AVFRL-DYK-GQSACLAQS--PQLHKQMSIC-GDF--GRV  317 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e----gga-~~F~~-~~~-~~~~~L~~S--pql~lq~li~-~g~--~rV  317 (435)
                      ..+.+.+|++|...||.|+-|..+++..-  +    ... ....+ |-. ..-.+||.|  |.|..-..-- .+.  -|+
T Consensus       362 ~~~~~~ir~~L~~~Gf~Ev~tys~~s~~~~~~~~~~~~~~~~i~l~NPls~e~svLRtsLlpgLL~~~~~N~~~~~~~~l  441 (552)
T PRK09616        362 EKLERAIRDLMVGLGFQEVMNFTLTSEEVLFEKMNLEPEEDYVEVLNPISEDYTVVRTSLLPSLLEFLSNNKHREYPQKI  441 (552)
T ss_pred             HHHHHHHHHHHHhCCcceeccceEechHHHHHHhCCCCCCCeEEEcCCCccchheEeccchHHHHHHHHhccCCCCCeeE
Confidence            34567789999999999999999986511  1    011 12333 222 234567766  4444332110 111  389


Q ss_pred             EEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHH
Q 013856          318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVT  364 (435)
Q Consensus       318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~  364 (435)
                      ||||+||+.+.. +..|..|++++-+-++.. -++.++..+++.++..
T Consensus       442 FEiG~Vf~~~~~-~~~~~~e~~~l~~~~~g~~~df~dlKg~ve~ll~~  488 (552)
T PRK09616        442 FEIGDVVLIDES-TETGTRTERKLAAAIAHSEASFTEIKSVVQALLRE  488 (552)
T ss_pred             EEeeEEEecCCc-cccCcchhhEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence            999999998752 344777999998877652 1477888888887764

>PRK06826 dnaE DNA polymerase III DnaE; Reviewed

Probab=93.22  E-value=0.58  Score=55.15  Aligned_cols=80  Identities=18%  Similarity=0.301  Sum_probs=60.9

Q ss_pred             CCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC
Q 013856          102 LKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK  177 (435)
Q Consensus       102 ~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~  177 (435)
                      ..|..|+|.|.|.++|.    .|+.|+|+.|.|.++.+.+++...      ...++...|..|.+|.|+|.+....    
T Consensus       989 ~~~~~v~v~g~i~~~~~~~tk~G~~maf~~leD~~g~~e~~vfp~------~~~~~~~~l~~~~~~~v~g~v~~~~---- 1058 (1151)
T PRK06826        989 KDGDKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEVIVFPK------VYEKYRSLLNEDNIVLIKGRVSLRE---- 1058 (1151)
T ss_pred             cCCcEEEEEEEEEEeEeeccCCCCeEEEEEEEECCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEEEecC----
Confidence            35789999999999874    366799999999999999999843      2334556799999999999996321    


Q ss_pred             CCceeEEEEEeEEEEe
Q 013856          178 GATQQVEVQIKKLYCV  193 (435)
Q Consensus       178 ~~t~~lEI~v~~i~vl  193 (435)
                        .+.+.|.+.++.-+
T Consensus      1059 --~~~~~~~~~~~~~l 1072 (1151)
T PRK06826       1059 --DEEPKLICEEIEPL 1072 (1151)
T ss_pred             --CCceEEEEeeeecH
Confidence              12366777766544

>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=92.97  E-value=0.13  Score=56.28  Aligned_cols=111  Identities=23%  Similarity=0.201  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCCCcceeeeccCCCceeeccCh---------------HHHHhhhc
Q 013856          249 RIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEGGSAVFRLDYKGQSACLAQSP---------------QLHKQMSI  310 (435)
Q Consensus       249 ~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~egga~~F~~~~~~~~~~L~~Sp---------------ql~lq~li  310 (435)
                      .+|+.+.+++|.-..+.||.||.||.|....   ..|..     +.|..++|+..|.               ++|+..+-
T Consensus       221 ~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~l~~~SGH~-----~~y~e~mf~~~~~~~~~~lKpmNCpgh~~ifk~~~~  295 (589)
T COG0441         221 TIRNLLEDYVRTKLRSYGYQEVKTPVLADLELWELSGHW-----DNYKEDMFLTESDDREYALKPMNCPGHILIFKSGLR  295 (589)
T ss_pred             cHHHHHHHHHHHHHHhcCceEecCCeeeecccchhccch-----hhccccceeeccCChhheeeeccCHhHHHHHhcCCc
Confidence            6788999999999999999999999996432   12211     1233444444443               23444322


Q ss_pred             cC-CC-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHHHHHHHHHHh
Q 013856          311 CG-DF-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIF  366 (435)
Q Consensus       311 ~~-g~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~  366 (435)
                      +- .+ -|.+|+|.|||.|.|.   +.+=+-.|||=|.-. |+. .+.+.+.+-+.+..+.
T Consensus       296 SYR~LP~r~~E~g~v~R~E~SGal~GL~RvR~ftqdDaHi-fc~-~dQi~~E~~~~~~~i~  354 (589)
T COG0441         296 SYRELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHI-FCT-PDQIKDEFKGILELIL  354 (589)
T ss_pred             ceeccchhhhhcceeecccCcchhhccccccceeecccce-ecc-HHHHHHHHHHHHHHHH
Confidence            11 01 2899999999999862   334567899988643 333 3455555544444433

>COG3111 Periplasmic protein with OB-fold [Function unknown]

Probab=92.91  E-value=0.63  Score=40.56  Aligned_cols=84  Identities=18%  Similarity=0.234  Sum_probs=60.3

Q ss_pred             cceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEE
Q 013856           90 REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGV  168 (435)
Q Consensus        90 ~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~  168 (435)
                      .+-+.+.+....+.+..|+++|-|..-  .|.- . |.+||.+++|++.++...         |. ..+++.+-|.|.|.
T Consensus        43 ~~~~TV~~Ak~~~Dda~V~l~GnIv~q--i~~D-~-y~FrD~sGeI~VeIdd~~---------w~g~tv~P~dkV~I~Ge  109 (128)
T COG3111          43 AKVTTVDQAKTLHDDAWVSLEGNIVRQ--IGDD-R-YVFRDASGEINVDIDDKV---------WNGQTVTPKDKVRIQGE  109 (128)
T ss_pred             cceeEHHHhhccccCCeEEEEeeEEEe--eCCc-e-EEEEcCCccEEEEecccc---------cCCcccCcccEEEEEeE
Confidence            344555555556779999999998653  3322 2 689999999999998531         33 35999999999999


Q ss_pred             EecCCccCCCCceeEEEEEeEEEEe
Q 013856          169 VSVPDVEIKGATQQVEVQIKKLYCV  193 (435)
Q Consensus       169 v~~~~~~~~~~t~~lEI~v~~i~vl  193 (435)
                      |-+--       ...||-|..|..+
T Consensus       110 vDk~~-------~~~eIdV~~I~k~  127 (128)
T COG3111         110 VDKDW-------NSVEIDVKHIEKL  127 (128)
T ss_pred             EcCCC-------ccceeEhhheEec
Confidence            86421       2478888887764

>PRK10053 hypothetical protein; Provisional

Probab=92.79  E-value=0.79  Score=40.54  Aligned_cols=79  Identities=14%  Similarity=0.275  Sum_probs=57.1

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh-cCCCCceEEEEEEEec
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR-SLSNESIVDVIGVVSV  171 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~-~l~~esiV~V~G~v~~  171 (435)
                      +.+.+......+..|++.|.|...=  |..  =|.+||+++.|++-++..         .|.. .+++++-|.|.|.|-+
T Consensus        50 ~tV~~a~~~~Dd~~V~L~G~Iv~~l--g~d--~Y~F~D~tG~I~VeID~~---------~w~G~~v~p~~kV~I~GevDk  116 (130)
T PRK10053         50 MTVEQAKTMHDGATVSLRGNLIDHK--GDD--RYVFRDKSGEINVIIPAA---------VFDGREVQPDQMININGSLDK  116 (130)
T ss_pred             EEHHHhhcCcCCCeEEEEEEEEEEe--CCc--eEEEECCCCcEEEEeCHH---------HcCCCcCCCCCEEEEEEEECC
Confidence            3555555567789999999997643  322  278999999999998743         2443 5999999999999864


Q ss_pred             CCccCCCCceeEEEEEeEEE
Q 013856          172 PDVEIKGATQQVEVQIKKLY  191 (435)
Q Consensus       172 ~~~~~~~~t~~lEI~v~~i~  191 (435)
                      .-       ...+|-|..|.
T Consensus       117 ~~-------~~~~IdV~~i~  129 (130)
T PRK10053        117 KS-------APPVVRVTHLQ  129 (130)
T ss_pred             CC-------CCeEEEEEEEe
Confidence            21       24677777765

>PRK07279 dnaE DNA polymerase III DnaE; Reviewed

Probab=92.57  E-value=0.69  Score=53.79  Aligned_cols=75  Identities=13%  Similarity=0.265  Sum_probs=57.2

Q ss_pred             CCEEEEEEEEeeecc-----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCC
Q 013856          104 DQEVLIRGRVHTTRP-----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG  178 (435)
Q Consensus       104 g~~V~v~GrV~~~R~-----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~  178 (435)
                      |..+.+.|+|.++|.     .|+.|+|+.|-|.++.+.+++..+      ..-++...|..+.+|.|+|.|...+     
T Consensus       884 ~~~~~~~~~i~~~~~~~tk~~g~~maf~~leD~~g~ie~~vFp~------~y~~~~~~l~~~~~~~v~G~v~~~~-----  952 (1034)
T PRK07279        884 NSEATILVQIQSIRVIRTKTKGQQMAFLSVTDTKKKLDVTLFPE------TYRQYKDELKEGKFYYLKGKIQERD-----  952 (1034)
T ss_pred             CCcceEEEEEEEEEEEEEcCCCCeEEEEEEeeCCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEEEecC-----
Confidence            667889999987552     577899999999999999999853      2334556799999999999996421     


Q ss_pred             CceeEEEEEeEEE
Q 013856          179 ATQQVEVQIKKLY  191 (435)
Q Consensus       179 ~t~~lEI~v~~i~  191 (435)
                        +.+.|.+.++.
T Consensus       953 --~~~~l~~~~i~  963 (1034)
T PRK07279        953 --GRLQMVLQQIQ  963 (1034)
T ss_pred             --CeeEEEEeeee
Confidence              34666666654

>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type

Probab=92.35  E-value=0.19  Score=54.59  Aligned_cols=31  Identities=26%  Similarity=0.474  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHh-hcCCeeeecCceeee
Q 013856          247 IFRIQSQVGNIFRQFL-LSENFVEIHTPKLIA  277 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl-~~~gF~EV~TP~l~~  277 (435)
                      =..++..|.+.+|++| ...|++||+||+|++
T Consensus        36 G~~lk~ni~~~wr~~~v~~~~~~ei~~~~i~~   67 (551)
T TIGR00389        36 GAVLKNNIKNAWRKFFIKNERVLEIDTPIITP   67 (551)
T ss_pred             hHHHHHHHHHHHHHHHHhcCCceEeeccccCC
Confidence            3467889999999988 478899999999977

This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.

>TIGR00469 pheS_mito phenylalanyl-tRNA synthetase, mitochondrial

Probab=91.87  E-value=0.66  Score=49.18  Aligned_cols=52  Identities=17%  Similarity=0.231  Sum_probs=36.8

Q ss_pred             eccCCCceeec--cChHHHHhhhccCCCc-------eeEEEecceecCcCCCCccccchhhhee
Q 013856          289 LDYKGQSACLA--QSPQLHKQMSICGDFG-------RVFETGPVFRAEDSYTHRHLCEFTGLDV  343 (435)
Q Consensus       289 ~~~~~~~~~L~--~Spql~lq~li~~g~~-------rVfeIgp~FR~E~s~t~rHl~EFt~lE~  343 (435)
                      +-|++....||  +|+-.--  +|-.+.+       ++...|.|||.+.. +.+|.|-|.|+|-
T Consensus       101 T~Yi~~~~lLRTHTSa~q~~--~~~~~~~~~~~~~~~~i~~G~VYRrD~i-DatH~p~FHQ~EG  161 (460)
T TIGR00469       101 CYYINEQHLLRAHTSAHELE--CFQGGLDDSDNIKSGFLISADVYRRDEI-DKTHYPVFHQADG  161 (460)
T ss_pred             ceEecCCceeCCCCcHHHHH--HHHhccccCCCcceeeEeecceeeCCCC-ccccCccceeeEE
Confidence            34667778887  4552221  2223332       48899999999985 8999999999994

Unlike all other known phenylalanyl-tRNA synthetases, the mitochondrial form demonstrated from yeast is monomeric. It is similar to but longer than the alpha subunit (PheS) of the alpha 2 beta 2 form found in Bacteria, Archaea, and eukaryotes, and shares the characteristic motifs of class II aminoacyl-tRNA ligases. This alignment models the experimental example from Saccharomyces cerevisiae (designated MSF1) and its orthologs from other eukaryotic species.

>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]

Probab=91.71  E-value=0.66  Score=48.82  Aligned_cols=75  Identities=12%  Similarity=0.219  Sum_probs=58.2

Q ss_pred             CEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-CCccCCCCceeE
Q 013856          105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV-PDVEIKGATQQV  183 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~-~~~~~~~~t~~l  183 (435)
                      ..|||+|-|.+++...+.-.|+.|.|....|+|++......      +.--.+.-|.-|.|.|.|.. ++      .|.+
T Consensus        24 ~~V~v~GEISn~t~~~sgH~YFtLKD~~A~i~c~mf~~~~~------~l~f~p~eG~~V~v~G~is~Y~~------rG~Y   91 (440)
T COG1570          24 GQVWVRGEISNFTRPASGHLYFTLKDERAQIRCVMFKGNNR------RLKFRPEEGMQVLVRGKISLYEP------RGDY   91 (440)
T ss_pred             CeEEEEEEecCCccCCCccEEEEEccCCceEEEEEEcCccc------ccCCCccCCCEEEEEEEEEEEcC------CCce
Confidence            46999999999987665578999999999999999976431      11124889999999999873 33      2578


Q ss_pred             EEEEeEEE
Q 013856          184 EVQIKKLY  191 (435)
Q Consensus       184 EI~v~~i~  191 (435)
                      .|.+.++.
T Consensus        92 Qi~~~~~~   99 (440)
T COG1570          92 QIVAESME   99 (440)
T ss_pred             EEEEecCC
Confidence            88888766

>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14)

Probab=91.66  E-value=1.6  Score=36.79  Aligned_cols=54  Identities=22%  Similarity=0.239  Sum_probs=40.7

Q ss_pred             CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856          101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS  170 (435)
Q Consensus       101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~  170 (435)
                      .+.|+.|++-|+|.+.+..    .+.....+++.++|.++...            .+..+-+|.|.|+|.
T Consensus        12 ~f~gk~V~ivGkV~~~~~~----~~~~~~~Dg~~v~v~l~~~~------------~~~~~~~vEViG~V~   65 (101)
T cd04479          12 QFVGKTVRIVGKVEKVDGD----SLTLISSDGVNVTVELNRPL------------DLPISGYVEVIGKVS   65 (101)
T ss_pred             hhCCCEEEEEEEEEEecCC----eEEEEcCCCCEEEEEeCCCC------------CcccCCEEEEEEEEC
Confidence            5889999999999999864    23333344569999987431            456788999999985

RPA3 is the smallest subunit of Replication protein A (RPA). RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.

>TIGR00617 rpa1 replication factor-a protein 1 (rpa1)

Probab=91.15  E-value=1.8  Score=47.73  Aligned_cols=98  Identities=13%  Similarity=0.188  Sum_probs=69.7

Q ss_pred             cceeEeccccCCCCCCEEEEEEEEee---ecc------CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCC
Q 013856           90 REWTEVGALNGSLKDQEVLIRGRVHT---TRP------VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNE  160 (435)
Q Consensus        90 ~~~~~i~~l~~~~~g~~V~v~GrV~~---~R~------~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~e  160 (435)
                      ..++.|.+|.+-.  ...+|+|||.+   +|.      .| ++.-++|.|.++.|++.+...      ..-+|...|..|
T Consensus       178 ~~~~pI~~L~py~--~~wtIkaRV~~Ks~ir~~~~~~geg-kvfsv~L~Degg~Irat~f~~------~~dkf~~~l~eG  248 (608)
T TIGR00617       178 RRVMPIASLSPYQ--NKWTIKARVTNKSEIRTWSNARGEG-KLFNVELLDESGEIRATAFNE------QADKFYDIIQEG  248 (608)
T ss_pred             cceEEHHHCCCCC--CceEEEEEEEeccccceecCCCCCc-eeeEEEEecCCCeEEEEECch------HHHHHhhhcccC
Confidence            3578999998743  34899999975   332      35 677789999999999998742      234677889999


Q ss_pred             ceEEEEE-EEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          161 SIVDVIG-VVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       161 siV~V~G-~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      ++..|.+ .|+...+.-+.....+||...+-..+.+|
T Consensus       249 ~VY~Is~~~Vk~an~~y~~~~~~yei~f~~~T~I~~~  285 (608)
T TIGR00617       249 KVYYISKGSLKPANKQFTNLGNDYEMTLDRDTVIEEC  285 (608)
T ss_pred             CEEEECceEEEEccccccCCCCCEEEEECCCeEEEEC
Confidence            9999966 44433222223335699999887777766

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=90.50  E-value=1.3  Score=49.51  Aligned_cols=67  Identities=16%  Similarity=0.141  Sum_probs=50.5

Q ss_pred             ccCCCCCCEEEEEEEEeeeccC--CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHH-HhcCCCCceEEEEEEEec
Q 013856           98 LNGSLKDQEVLIRGRVHTTRPV--GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRF-VRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        98 l~~~~~g~~V~v~GrV~~~R~~--G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~-~~~l~~esiV~V~G~v~~  171 (435)
                      +.+-..|+.|+|.|+|.+.+..  |.++.-+.+.|+++.++++......       .| .+.++.|+.+.|.|++..
T Consensus        53 i~~l~~g~~vtv~g~V~~~~~~~~~~~~~~v~l~D~tg~i~l~~F~~n~-------~~~~~~l~~G~~~~v~Gkv~~  122 (681)
T PRK10917         53 IAELRPGEKVTVEGEVLSAEVVFGKRRRLTVTVSDGTGNLTLRFFNFNQ-------PYLKKQLKVGKRVAVYGKVKR  122 (681)
T ss_pred             HHHCCCCCEEEEEEEEEEEEEccCCceEEEEEEEECCeEEEEEEEccCc-------HHHHhhCCCCCEEEEEEEEEe
Confidence            3334568999999999886433  4466778889999999999883111       24 357999999999999975

>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair

Probab=90.12  E-value=1.8  Score=36.81  Aligned_cols=57  Identities=21%  Similarity=0.242  Sum_probs=37.8

Q ss_pred             CCCCCEEEEEEEEeeeccCCCceEEEEEE-eCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856          101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVR-ERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus       101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lr-d~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      .+.|+.|+|-|+|.+....| + . +.|+ .+++.|+|.+...            ..+..+.+|.|.|+|...
T Consensus        15 ~~~gk~VrivGkv~~~~~~g-~-~-~~l~~~d~~~V~v~l~~~------------~~~~~~~~vEviG~V~~~   72 (109)
T PF08661_consen   15 QFVGKTVRIVGKVESVDPDG-G-S-ATLSTSDGGQVTVSLNPP------------SDEELSKYVEVIGKVNDD   72 (109)
T ss_dssp             GGTTSEEEEEEEEEEE-TTS-S-E-EEEE-TTS-EEEEEESS--------------SS---SEEEEEEEE-TT
T ss_pred             hhCCCeEEEEEEEeeEcCCC-C-E-EEEEcCCCCEEEEEeCCC------------CCCCCCCEEEEEEEEcCC
Confidence            57899999999999999777 3 3 3455 3567888877642            134568899999999643

; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.

>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG

Probab=89.66  E-value=3  Score=31.49  Aligned_cols=56  Identities=18%  Similarity=0.168  Sum_probs=39.1

Q ss_pred             EEEEEeeecc--C-CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856          109 IRGRVHTTRP--V-GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus       109 v~GrV~~~R~--~-G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      |.|+|.+.+.  . |+++.-+.+.|+++.|.++....    .+   .....++.|+.+.|.|.+..
T Consensus         2 i~~~V~~~~~~~~~~~~~~~~~~~D~~g~i~~~~F~~----~~---~~~~~~~~G~~~~v~Gkv~~   60 (75)
T cd04488           2 VEGTVVSVEVVPRRGRRRLKVTLSDGTGTLTLVFFNF----QP---YLKKQLPPGTRVRVSGKVKR   60 (75)
T ss_pred             EEEEEEEEEeccCCCccEEEEEEEcCCCEEEEEEECC----CH---HHHhcCCCCCEEEEEEEEee
Confidence            5666655422  1 34566778899999999998742    11   11357999999999999864

RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha

>cd00769 PheRS_beta_core Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain

Probab=89.55  E-value=0.68  Score=43.35  Aligned_cols=108  Identities=21%  Similarity=0.260  Sum_probs=59.3

Q ss_pred             HHHHHHHHHhhcCCeeeecCceeeecC-CC----CCcceeee-ccC-CCceeeccC--hHHHHhhhc--cCC--CceeEE
Q 013856          253 QVGNIFRQFLLSENFVEIHTPKLIAGS-SE----GGSAVFRL-DYK-GQSACLAQS--PQLHKQMSI--CGD--FGRVFE  319 (435)
Q Consensus       253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~-~e----gga~~F~~-~~~-~~~~~L~~S--pql~lq~li--~~g--~~rVfe  319 (435)
                      .+.+.+|++|...||.||-|..+++.. ..    +...+.++ |-. ..--+||.|  |.|..-..-  .-+  --|+||
T Consensus         4 ~~~~~ir~~L~~~G~~E~~tys~~~~~~~~~~~~~~~~~i~l~NPis~e~~~lR~sLlp~LL~~~~~N~~~~~~~~~lFE   83 (198)
T cd00769           4 KLERKLRRLLAGLGFQEVITYSLTSPEEAELFDGGLDEAVELSNPLSEEYSVLRTSLLPGLLDALARNLNRKNKPLRLFE   83 (198)
T ss_pred             HHHHHHHHHHHHCCCceeecccCCCHHHHHhccCCCCCeEEEcCCCchhHHHHHHHHHHHHHHHHHHHhcCCCCCEeEEE
Confidence            456678999999999999999997641 11    11122222 111 223356655  344332211  112  229999


Q ss_pred             EecceecCcCCCCccccchhhheeeeccc------------ccHHHHHHHHHHHHHH
Q 013856          320 TGPVFRAEDSYTHRHLCEFTGLDVEMEIK------------KHYSEVMDIVDCLFVT  364 (435)
Q Consensus       320 Igp~FR~E~s~t~rHl~EFt~lE~e~a~~------------~~~~d~m~~~e~l~~~  364 (435)
                      ||+||.....    +..|.+.+=+-++..            .++.|+-..++.++..
T Consensus        84 iG~vf~~~~~----~~~e~~~l~~~~~g~~~~~~w~~~~~~~~f~~~Kg~ve~ll~~  136 (198)
T cd00769          84 IGRVFLKDED----GPEEEEHLAALLSGNREPESWQGKGRPVDFYDAKGILEALLRA  136 (198)
T ss_pred             eEeEEecCCC----CCcchheEEEEEECCCccccccCCCCccCHhhHHHHHHHHHHH
Confidence            9999976431    223444443322221            1466777777777654

PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. While the alpha chain contains a catalytic core domain, the beta chain has a non-catalytic core domain.

>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]

Probab=89.51  E-value=1.1  Score=46.74  Aligned_cols=101  Identities=21%  Similarity=0.298  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCCcc----eeee-ccCCCceeec--cChHHHHhh--hccCCC
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGGSA----VFRL-DYKGQSACLA--QSPQLHKQM--SICGDF  314 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egga~----~F~~-~~~~~~~~L~--~Spql~lq~--li~~g~  314 (435)
                      -.+....|.+.++..|...||..|+||+|....+   +.|+.    .|++ +-.|..++||  ..+++-..-  .+.+.-
T Consensus        16 e~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~~l~~~g~~l~~~~f~l~d~~g~~l~LRpD~T~pVaR~~~~~~~~~P   95 (390)
T COG3705          16 EARRKEEIRDQLLALFRAWGYERVETPTLEPADPLLDGAGEDLRRRLFKLEDETGGRLGLRPDFTIPVARIHATLLAGTP   95 (390)
T ss_pred             HHhhHHHHHHHHHHHHHHhCCccccccccchhhhhhhccchhhhhhheEEecCCCCeEEecccccHHHHHHHHHhcCCCC
Confidence            3455677888889999999999999999987652   21222    6886 4567778888  344433321  123356


Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeeccc
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK  348 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~  348 (435)
                      .|++..|+|||+... -+.-..||+|.=+|+=..
T Consensus        96 ~Rl~Y~G~Vfr~~~~-~~g~~~Ef~QaGiEllG~  128 (390)
T COG3705          96 LRLSYAGKVFRAREG-RHGRRAEFLQAGIELLGD  128 (390)
T ss_pred             ceeeecchhhhcchh-ccCcccchhhhhhHHhCC
Confidence            899999999998732 333345999988876543

>COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]

Probab=89.10  E-value=1.9  Score=40.51  Aligned_cols=68  Identities=21%  Similarity=0.362  Sum_probs=51.9

Q ss_pred             CCCCCCEEEEEEEEeeec-cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH---hcCCCCceEEEEEEEec
Q 013856          100 GSLKDQEVLIRGRVHTTR-PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV---RSLSNESIVDVIGVVSV  171 (435)
Q Consensus       100 ~~~~g~~V~v~GrV~~~R-~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~---~~l~~esiV~V~G~v~~  171 (435)
                      +-...+.|+|.|-|.+.+ ..|..+.|+.|.|++++|-+++..+.    .+.....   .-+..|.+|.|+|.+..
T Consensus        47 ~G~l~e~v~vkg~V~~~~n~~~~gi~~l~lndgtGti~vva~~~t----ee~l~~n~~~p~~~eGe~veVtGrv~~  118 (204)
T COG4085          47 DGRLNEEVTVKGEVTADQNAIGGGIESLVLNDGTGTITVVASRST----EETLELNEGMPVTVEGEIVEVTGRVEE  118 (204)
T ss_pred             CceeeccceeeeEEEeeecccccceEEEEEECCCCcEEEEEecCh----hHhHhhcCCCCccccCcEEEEEEEEEE
Confidence            345567888999999988 56668999999999999999988653    2322211   13669999999998863

>PRK07459 single-stranded DNA-binding protein; Provisional

Probab=88.12  E-value=12  Score=32.42  Aligned_cols=59  Identities=8%  Similarity=0.061  Sum_probs=39.3

Q ss_pred             CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc-CC-CCc-eeEEEEEeEEEEeecC
Q 013856          132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-IK-GAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~-~~t-~~lEI~v~~i~vls~~  196 (435)
                      +.-+.|++-..      ......+.|.+|+.|.|+|.+....-. .. |.+ ...||.+.+|..|++.
T Consensus        43 t~w~~v~~wg~------~Ae~~~~~l~KG~~V~V~G~l~~~~~~d~d~G~~r~~~ei~a~~i~~L~~k  104 (121)
T PRK07459         43 PDWFNLEIWGK------TAQVAADYVKKGSLIGITGSLKFDRWTDRNTGEDRSKPVIRVDRLELLGSK  104 (121)
T ss_pred             ceEEEEEEehH------HHHHHHHHcCCCCEEEEEEEEEecceEcCCCCeEEEEEEEEEeEEEECcCC
Confidence            44577777632      112234679999999999999754221 11 333 3499999999999753

>PF12869 tRNA_anti-like: tRNA_anti-like; InterPro: IPR024422 The function of the proteins in this entry is not known, but they contain a novel variant of the nucleic acid-binding OB fold []

Probab=87.79  E-value=1.8  Score=38.12  Aligned_cols=66  Identities=17%  Similarity=0.199  Sum_probs=38.1

Q ss_pred             CCCCCCEEEEEEEEeeeccCCCceEEEEEEeC--CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856          100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRER--VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS  170 (435)
Q Consensus       100 ~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~--~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~  170 (435)
                      ....|+.|.|.|.|..++....+-.++...+.  ...|+|.+..+..     .......|..|+.|.|+|++.
T Consensus        63 ~kY~gK~i~vtG~V~~I~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~l~~G~~Vti~G~~~  130 (144)
T PF12869_consen   63 KKYKGKIIEVTGTVSSIDKGFGDNYVVLLGTENGFAGVQCYFSNDQE-----KRASVAKLKKGQKVTIKGICT  130 (144)
T ss_dssp             HHHTT-EEEEEEEEEEEEE-STT-EEEEEE-TT-S-S--EEEEEEGG-----GHHHHHH--TTSEEEEEEE--
T ss_pred             hhcCCCEEEEEEEEEEEEEcCCCcEEEEccCCCCceeEEEEEccchh-----hhhhHhcCCCCCEEEEEEEEE
Confidence            34679999999999999873324345555553  3578888876421     111234599999999999875

; PDB: 3F1Z_I.

>PRK15491 replication factor A; Provisional

Probab=87.75  E-value=3.8  Score=42.62  Aligned_cols=89  Identities=16%  Similarity=0.259  Sum_probs=63.6

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeee-------ccCC--CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH--hcCCCC
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTT-------RPVG--NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV--RSLSNE  160 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~-------R~~G--~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~--~~l~~e  160 (435)
                      ..+|++|.+.  ...|+|.|||.++       |..|  .++.=++|-|.+++|.+++-...       .+.+  ..|..|
T Consensus        57 ~~kI~dL~~~--~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG~ir~tlW~~~-------a~~~~~~~le~G  127 (374)
T PRK15491         57 TTKIADINES--SSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVADETGSIRLTLWDDL-------ADLIKTGDIEVG  127 (374)
T ss_pred             cccHHHCCCC--CCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEcCCCeEEEEEECch-------hhhhccCCcCCC
Confidence            3567777643  3679999999987       3334  26666789999999999997431       1122  359999


Q ss_pred             ceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          161 SIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       161 siV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      +++.|.|.+..      +- +.+||++.+-..+.+|
T Consensus       128 ~v~~I~~~~~~------~y-~g~Ei~i~~~~~i~~~  156 (374)
T PRK15491        128 KSLNISGYAKE------GY-SGIEVNIGRYGGISES  156 (374)
T ss_pred             CEEEEeeeecc------Cc-ccEEEEeCCCceeeec
Confidence            99999997432      11 2389999988888887

>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed

Probab=87.74  E-value=2.6  Score=44.50  Aligned_cols=77  Identities=13%  Similarity=0.204  Sum_probs=59.2

Q ss_pred             CCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-CCccCCCCcee
Q 013856          104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV-PDVEIKGATQQ  182 (435)
Q Consensus       104 g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~-~~~~~~~~t~~  182 (435)
                      -..|||.|=|.+.+.++++=+|+.|.|....|-||+..+...      +.--.+..|+-|.|.|.|.. ++      .|.
T Consensus        23 ~~~v~v~gEis~~~~~~sGH~Yf~Lkd~~a~i~~~~~~~~~~------~~~~~~~~G~~v~v~g~~~~y~~------~g~   90 (438)
T PRK00286         23 LGQVWVRGEISNFTRHSSGHWYFTLKDEIAQIRCVMFKGSAR------RLKFKPEEGMKVLVRGKVSLYEP------RGD   90 (438)
T ss_pred             CCcEEEEEEeCCCeeCCCCeEEEEEEcCCcEEEEEEEcChhh------cCCCCCCCCCEEEEEEEEEEECC------CCC
Confidence            468999999999876644558899999999999999875321      01124789999999999873 32      256


Q ss_pred             EEEEEeEEEE
Q 013856          183 VEVQIKKLYC  192 (435)
Q Consensus       183 lEI~v~~i~v  192 (435)
                      +.|.|.+|..
T Consensus        91 ~ql~v~~i~~  100 (438)
T PRK00286         91 YQLIVEEIEP  100 (438)
T ss_pred             EEEEEEEeee
Confidence            9999998875

>TIGR00237 xseA exodeoxyribonuclease VII, large subunit

Probab=87.43  E-value=2.4  Score=44.91  Aligned_cols=75  Identities=16%  Similarity=0.185  Sum_probs=57.4

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-CCccCCCCceeEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV-PDVEIKGATQQVE  184 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~-~~~~~~~~t~~lE  184 (435)
                      .|||.|=|.+.+..+++=+|+.|.|....|-||+..+...      ...-.+..|+-|.|.|.|.. ++      .|.+.
T Consensus        19 ~v~V~GEisn~~~~~sGH~YFtLkD~~a~i~~vmf~~~~~------~l~f~~~~G~~V~v~g~v~~y~~------~G~~q   86 (432)
T TIGR00237        19 QVWIQGEISNFTQPVSGHWYFTLKDENAQVRCVMFRGNNN------RLKFRPQNGQQVLVRGGISVYEP------RGDYQ   86 (432)
T ss_pred             cEEEEEEecCCeeCCCceEEEEEEcCCcEEEEEEEcChhh------CCCCCCCCCCEEEEEEEEEEECC------CCcEE
Confidence            7999999999876544458889999999999999875321      00124789999999999863 32      25799


Q ss_pred             EEEeEEEE
Q 013856          185 VQIKKLYC  192 (435)
Q Consensus       185 I~v~~i~v  192 (435)
                      |.|.+|.-
T Consensus        87 l~v~~i~~   94 (432)
T TIGR00237        87 IICFEMQP   94 (432)
T ss_pred             EEEEEecc
Confidence            99998874

This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.

>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC)

Probab=86.64  E-value=15  Score=29.52  Aligned_cols=74  Identities=18%  Similarity=0.253  Sum_probs=51.3

Q ss_pred             EEEEEEEeeec----cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCC-CCceEEEEEEEecCCccCCCCce
Q 013856          107 VLIRGRVHTTR----PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLS-NESIVDVIGVVSVPDVEIKGATQ  181 (435)
Q Consensus       107 V~v~GrV~~~R----~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~-~esiV~V~G~v~~~~~~~~~~t~  181 (435)
                      |.|.|-|-.+-    ..|+.+.-+.|.|.+.+|-|..... .  .   .+....|. .|++|.|.|.+....-     .+
T Consensus         2 v~i~G~Vf~~e~re~k~g~~i~~~~itD~t~Si~~K~F~~-~--~---~~~~~~ik~~G~~v~v~G~v~~D~f-----~~   70 (82)
T cd04484           2 VVVEGEVFDLEIRELKSGRKILTFKVTDYTSSITVKKFLR-K--D---EKDKEELKSKGDWVRVRGKVQYDTF-----SK   70 (82)
T ss_pred             EEEEEEEEEEEEEEecCCCEEEEEEEEcCCCCEEEEEecc-C--C---hhHHhhcccCCCEEEEEEEEEEccC-----CC
Confidence            67889987752    3465666688999999888887753 1  1   12236788 9999999999875321     24


Q ss_pred             eEEEEEeEEE
Q 013856          182 QVEVQIKKLY  191 (435)
Q Consensus       182 ~lEI~v~~i~  191 (435)
                      ++.+.+..|.
T Consensus        71 e~~~~i~~i~   80 (82)
T cd04484          71 ELVLMINDIE   80 (82)
T ss_pred             ceEEEeeeEE
Confidence            6777776654

Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.

>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=86.39  E-value=1.2  Score=46.54  Aligned_cols=119  Identities=11%  Similarity=0.157  Sum_probs=65.9

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--------CCCcceeeeccCCCceeeccChHHHHhhh-----cc
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--------EGGSAVFRLDYKGQSACLAQSPQLHKQMS-----IC  311 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--------egga~~F~~~~~~~~~~L~~Spql~lq~l-----i~  311 (435)
                      .....+--+|+++.-+|+.++||+-+.||-|.....        .+.-+.+.+---+.+.||.-..|.-+-.+     +.
T Consensus       182 g~~a~LeqALi~yal~~l~~kGy~pl~~P~i~rkeVm~~cg~~~~~d~~~~y~ld~~~~~~LiaTaE~plAa~~~~e~~~  261 (455)
T KOG2509|consen  182 GAGAFLEQALINYALDFLNAKGYTPLTTPDILRKEVMQKCGQLPRFDEEQYYVLDGGDEKYLIATAEQPLAAYHRDEWLE  261 (455)
T ss_pred             CHHHHHHHHHHHHHHHHHHHcCCccccCchhhhHHHHHHhccCcCCCcceEEeecCCccceeEeeccchhhhhhcccccc
Confidence            356677788999999999999999999999876431        11111122111123445554443322211     11


Q ss_pred             C-CC-ceeEEEecceecCcCC---CCc---cccchhhheeee------cccccHHHHHHHHHHHHHH
Q 013856          312 G-DF-GRVFETGPVFRAEDSY---THR---HLCEFTGLDVEM------EIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       312 ~-g~-~rVfeIgp~FR~E~s~---t~r---Hl~EFt~lE~e~------a~~~~~~d~m~~~e~l~~~  364 (435)
                      - .+ -|+-..+.|||+|-+.   +.+   -.-+|+-+|.-.      ++.- +++++...++++..
T Consensus       262 ~~~lPiK~vg~S~CfR~EaGs~G~d~~GlyRVHqF~KVE~Fvit~Pe~S~~~-~eEmi~~~eef~qs  327 (455)
T KOG2509|consen  262 EDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQFEKVEQFVITGPEDSWEM-LEEMINNQEEFYQS  327 (455)
T ss_pred             cccCceeeeehhHHHHHHhhhcccccccceeeeeeeeeEEEEecCcchhHHH-HHHHHHHHHHHHHH
Confidence            0 11 2455678999999622   222   223899988632      2222 44555555555543

>PRK06461 single-stranded DNA-binding protein; Reviewed

Probab=85.57  E-value=12  Score=32.91  Aligned_cols=85  Identities=16%  Similarity=0.185  Sum_probs=57.1

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeec------cCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceE
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTR------PVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV  163 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R------~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV  163 (435)
                      ..+|++|.+.  ...|.+.|.|.++-      ..|+  .+.-+.|.|.+++|.+.+=.. .         +..|..||+|
T Consensus         4 ~~kI~dL~~g--~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D~TG~I~~tlW~~-~---------a~~l~~GdvV   71 (129)
T PRK06461          4 ITKIKDLKPG--MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGDETGRVKLTLWGE-Q---------AGSLKEGEVV   71 (129)
T ss_pred             ceEHHHcCCC--CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEECCCCEEEEEEeCC-c---------cccCCCCCEE
Confidence            4577777542  26789999998542      1232  366678899999999887532 1         2468999999


Q ss_pred             EEEE-EEecCCccCCCCceeEEEEEeE---EEEeec
Q 013856          164 DVIG-VVSVPDVEIKGATQQVEVQIKK---LYCVSR  195 (435)
Q Consensus       164 ~V~G-~v~~~~~~~~~~t~~lEI~v~~---i~vls~  195 (435)
                      .|.| .+..       -.+.++|.+.+   |..+.+
T Consensus        72 ~I~na~v~~-------f~G~lqL~i~~~~~i~~~~~  100 (129)
T PRK06461         72 EIENAWTTL-------YRGKVQLNVGKYGSISESDD  100 (129)
T ss_pred             EEECcEEee-------eCCEEEEEECCCEEEEECCc
Confidence            9994 4432       12468899984   665554

>PRK06863 single-stranded DNA-binding protein; Provisional

Probab=85.46  E-value=19  Score=33.22  Aligned_cols=57  Identities=16%  Similarity=0.026  Sum_probs=38.8

Q ss_pred             EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856          134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       134 ~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      -+.|++...      ..-.+...|++||.|.|+|.+....- ...|.+ ..++|.+.+|.+|+..
T Consensus        53 w~~Vv~fgk------~AE~v~~~LkKGs~V~VeGrL~~r~w~DkdG~~r~~~eI~a~~i~~L~~r  111 (168)
T PRK06863         53 WHRIVFYRR------QAEVAGEYLRKGSQVYVEGRLKTRKWQDQNGQDRYTTEIQGDVLQMLGGR  111 (168)
T ss_pred             EEEEEEEhH------HHHHHHHHCCCCCEEEEEEEEEeCCccCCCCCEEEEEEEEEeEEEECCCC
Confidence            466766532      22234677999999999999975322 123433 3499999999998754

>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids

Probab=84.93  E-value=17  Score=29.73  Aligned_cols=55  Identities=20%  Similarity=0.134  Sum_probs=32.2

Q ss_pred             eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC-CCc-eeEEEEEeEEEEe
Q 013856          133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK-GAT-QQVEVQIKKLYCV  193 (435)
Q Consensus       133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~-~~t-~~lEI~v~~i~vl  193 (435)
                      ..++|++-..      ..-.....+..||.|.|+|.+....-..+ |.+ ..++|.+++|..|
T Consensus        48 ~~~~v~~~g~------~A~~~~~~l~kG~~V~V~G~l~~~~~~~~~G~~~~~~~i~a~~i~fl  104 (104)
T PF00436_consen   48 DWINVVAWGK------LAENVAEYLKKGDRVYVEGRLRTRTYEDKDGQKRYRVEIIADNIEFL  104 (104)
T ss_dssp             EEEEEEEEHH------HHHHHHHH--TT-EEEEEEEEEEEEEESTTSSEEEEEEEEEEEEEE-
T ss_pred             EEEEEEeeee------cccccceEEcCCCEEEEEEEEEeeEEECCCCCEEEEEEEEEEEEEeC
Confidence            3567776632      11223456999999999998874322112 333 4599999999875

It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....

>PRK08486 single-stranded DNA-binding protein; Provisional

Probab=84.83  E-value=19  Score=33.74  Aligned_cols=59  Identities=12%  Similarity=0.074  Sum_probs=38.6

Q ss_pred             CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856          132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      +.-+-|++-..      ....+...|++||-|.|+|.+....- ...+.+ -.+||.+.+|.+|++.
T Consensus        48 t~fi~v~~fg~------~AE~~~~~l~KG~~V~VeGrL~~~~y~dkdG~~r~~~eI~a~~v~~L~~~  108 (182)
T PRK08486         48 VCFIDIRLFGR------TAEIANQYLSKGSKVLIEGRLTFESWMDQNGQKRSKHTITAESMQMLDSK  108 (182)
T ss_pred             ceEEEEEEEhH------HHHHHHHHcCCCCEEEEEEEEEeCcEECCCCcEEEEEEEEEeEEEECCCC
Confidence            34566666532      11223467999999999999974321 122433 3499999999999765

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=84.28  E-value=4.7  Score=44.72  Aligned_cols=66  Identities=17%  Similarity=0.158  Sum_probs=48.4

Q ss_pred             cccCCCCCCEEEEEEEEeeec---cCCCceEEEEEEe-CCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEec
Q 013856           97 ALNGSLKDQEVLIRGRVHTTR---PVGNKLAFVVVRE-RVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSV  171 (435)
Q Consensus        97 ~l~~~~~g~~V~v~GrV~~~R---~~G~kl~Fl~Lrd-~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~  171 (435)
                      .+.+-..|+.|+|.|+|.+..   ..+.++.-+.+.| +++.+.++....         .|. +.++.|+.+.|.|++..
T Consensus        25 ~i~~~~~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~F~~---------~~~~~~~~~g~~~~~~Gk~~~   95 (630)
T TIGR00643        25 TIGELLPGERATIVGEVLSHCIFGFKRRKVLKLRLKDGGYKKLELRFFNR---------AFLKKKFKVGSKVVVYGKVKS   95 (630)
T ss_pred             CHHHcCCCCEEEEEEEEEEeEeccCCCCceEEEEEEECCCCEEEEEEECC---------HHHHhhCCCCCEEEEEEEEEe
Confidence            344446689999999987532   1223456678889 999999999842         133 56999999999999964

>PRK07275 single-stranded DNA-binding protein; Provisional

Probab=83.87  E-value=22  Score=32.65  Aligned_cols=85  Identities=13%  Similarity=0.223  Sum_probs=51.8

Q ss_pred             EEEEEEEEee---ecc--CCCceEEEEEE------e-----CCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856          106 EVLIRGRVHT---TRP--VGNKLAFVVVR------E-----RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV  169 (435)
Q Consensus       106 ~V~v~GrV~~---~R~--~G~kl~Fl~Lr------d-----~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v  169 (435)
                      .|.|.|||..   +|.  .|..++-+.|-      +     .+.-|.|++-..      .....++.|.+|+.|.|+|.+
T Consensus         4 ~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk------~Ae~~~~~l~KG~~V~VeGrl   77 (162)
T PRK07275          4 NVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQ------QAENLANWAKKGALIGVTGRI   77 (162)
T ss_pred             EEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcH------HHHHHHHHcCCCCEEEEEEEE
Confidence            4666677664   342  34444444442      1     134577777642      112245679999999999999


Q ss_pred             ecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856          170 SVPDV-EIKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       170 ~~~~~-~~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      ....- ...|.+ -..||.+.+|.+|.+.
T Consensus        78 ~~r~y~dkdG~k~~~~evva~~i~~l~~~  106 (162)
T PRK07275         78 QTRNYENQQGQRVYVTEVVADNFQMLESR  106 (162)
T ss_pred             EeceEECCCCCEEEEEEEEEeEEEECCCC
Confidence            74321 122444 3499999999998754

>KOG1035 consensus eIF-2alpha kinase GCN2 [Translation, ribosomal structure and biogenesis]

Probab=83.53  E-value=2.2  Score=49.96  Aligned_cols=119  Identities=13%  Similarity=0.067  Sum_probs=70.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeec-CCCC-Ccceeee-ccCCC----ceeeccChHHHHhhhccCCCceeE
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAG-SSEG-GSAVFRL-DYKGQ----SACLAQSPQLHKQMSICGDFGRVF  318 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~-~~eg-ga~~F~~-~~~~~----~~~L~~Spql~lq~li~~g~~rVf  318 (435)
                      ..-.+|..++..+-+.|.++|++|++||-+... +|.. ..++..+ +.-|.    ++=||+----|.-+=-+ -.-|-|
T Consensus       930 ~~~~l~~~v~e~~~~ifr~Hga~~l~tpp~~~~~~~~~~~~~~v~~ld~sG~~v~Lp~DLr~pfar~vs~N~~-~~~Kry 1008 (1351)
T KOG1035|consen  930 INNELREYVVEEVVKIFRKHGAIELETPPLSLRNACAYFSRKAVELLDHSGDVVELPYDLRLPFARYVSRNSV-LSFKRY 1008 (1351)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcceeccCCccccccccchhccceeeeecCCCCEEEeeccccchHHHHhhhchH-HHHHHh
Confidence            344678889999999999999999999966542 2222 1223322 22222    22233222222211101 123569


Q ss_pred             EEecceecCcCCCCccccchhhheeeecccc-c--HHHHHHHHHHHHHHHhHH
Q 013856          319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-H--YSEVMDIVDCLFVTIFDS  368 (435)
Q Consensus       319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~--~~d~m~~~e~l~~~i~~~  368 (435)
                      +|++|||-+.+  + |--||+.|+|-.-.-+ +  -.|++.++-+++..++.+
T Consensus      1009 ~i~rVyr~~~~--~-hP~~~~ec~fDii~~t~sl~~AE~L~vi~Ei~~~~l~~ 1058 (1351)
T KOG1035|consen 1009 CISRVYRPAIH--N-HPKECLECDFDIIGPTTSLTEAELLKVIVEITTEILHE 1058 (1351)
T ss_pred             hhheeeccccc--C-CCccccceeeeEecCCCCccHHHHHHHHHHHHHHHhcc
Confidence            99999998883  3 8889999999654321 1  146777777777765543

>PRK14699 replication factor A; Provisional

Probab=83.15  E-value=7.9  Score=41.65  Aligned_cols=88  Identities=13%  Similarity=0.206  Sum_probs=58.9

Q ss_pred             eEeccccCCCCCCEEEEEEEEeee-------ccCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh--cCCCCc
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTT-------RPVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR--SLSNES  161 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~-------R~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~--~l~~es  161 (435)
                      .+|++|.+  .+..|+|.|||.++       |..|+  +++=+.|-|.+++|-+++=...       ...+.  .|..||
T Consensus        58 ~kI~di~~--~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~iaDeTG~ir~tlW~~~-------a~~~~~g~l~~GD  128 (484)
T PRK14699         58 VKIENITP--ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVGDETGKIKLTLWDNM-------ADLIKAGKIKAGQ  128 (484)
T ss_pred             ccHhHccC--CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEecCCCeEEEEEecCc-------cchhhhcCCCCCC
Confidence            46777754  35789999999998       44453  5565688899999999975321       11222  599999


Q ss_pred             eEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          162 IVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       162 iV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      +|.|.|.++ ..     - +.+||.+....++.++
T Consensus       129 vv~I~~~~r-~~-----~-~g~el~~~~~~~i~~~  156 (484)
T PRK14699        129 TLQISGYAK-QG-----Y-SGVEVNIGNNGVLTES  156 (484)
T ss_pred             EEEEcceec-cC-----C-CCceEEeCCCceeecc
Confidence            999999643 22     1 2367777655555544

>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]

Probab=82.77  E-value=13  Score=41.45  Aligned_cols=84  Identities=15%  Similarity=0.110  Sum_probs=59.9

Q ss_pred             cccCCCCCCEEEEEEEEeee--c-cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEecC
Q 013856           97 ALNGSLKDQEVLIRGRVHTT--R-PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        97 ~l~~~~~g~~V~v~GrV~~~--R-~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~~  172 (435)
                      .+.+...|+.|+|.|.|.+.  + ..++++.=+.+.|+++.|=+++....    .    |+ +.++.|..|.|.|.+..-
T Consensus        53 ~i~~~~~g~~vti~g~V~~~~~~~~~~~~~l~v~~~d~~~~l~l~fFn~~----~----~l~~~~~~G~~v~v~Gk~~~~  124 (677)
T COG1200          53 GIAEARPGEIVTIEGTVLSHEKFPFGKRKLLKVTLSDGTGVLTLVFFNFP----A----YLKKKLKVGERVIVYGKVKRF  124 (677)
T ss_pred             ChhhcCCCceEEEEEEEEeeeccCCCCCceEEEEEecCcEEEEEEEECcc----H----HHHhhCCCCCEEEEEEEEeec
Confidence            34455679999999999664  4 33555555788899999999988532    1    33 579999999999999752


Q ss_pred             CccCCCCceeEEEEEeEEEEeec
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSR  195 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~  195 (435)
                             .+..++.--++.+++.
T Consensus       125 -------~~~~~~~hpe~~~~~~  140 (677)
T COG1200         125 -------KGGLQITHPEYIVNDD  140 (677)
T ss_pred             -------cCceEEEcceEEecCC
Confidence                   2356666666666543

>KOG3108 consensus Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [Replication, recombination and repair]

Probab=82.74  E-value=7.4  Score=38.54  Aligned_cols=75  Identities=15%  Similarity=0.150  Sum_probs=53.6

Q ss_pred             CEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856          105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE  184 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE  184 (435)
                      ..|++-|||.++-.+..+ ++|+|-|+++.|=|..=......+.    ....|..|-.|.|.|.++.+.       |..+
T Consensus        69 ~~v~~VGivr~~e~~~t~-i~y~I~D~tg~id~r~W~~~~~~~~----e~~~l~~~~yVkv~G~Lk~f~-------Gk~s  136 (265)
T KOG3108|consen   69 SAVSIVGIVRNIEKSATN-ITYEIEDGTGQIDVRQWFHDNAESE----EMPALETGTYVKVYGHLKPFQ-------GKKS  136 (265)
T ss_pred             EEEEEEEEEEeceecCcc-eEEEEecCcccEEEEEeccccchhh----hCcccccCcEEEeeecccCCC-------Ccee
Confidence            368899999999988766 6789999999977765443222222    234799999999999997653       3345


Q ss_pred             EEEeEEE
Q 013856          185 VQIKKLY  191 (435)
Q Consensus       185 I~v~~i~  191 (435)
                      |.+.+|.
T Consensus       137 l~~fkI~  143 (265)
T KOG3108|consen  137 LQVFKIR  143 (265)
T ss_pred             EEEEeee
Confidence            5555544

>PRK06751 single-stranded DNA-binding protein; Provisional

Probab=82.52  E-value=27  Score=32.41  Aligned_cols=58  Identities=17%  Similarity=0.213  Sum_probs=39.2

Q ss_pred             eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEeEEEEeecC
Q 013856          133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      .-+-|++-..      ........|++|+.|.|+|.+....-. ..+.+ ..+||.+..|.+|.+.
T Consensus        47 dwi~~v~wgk------~Ae~~~~~l~KG~~V~VeGrL~~r~yedkdG~~~~~~eVva~~i~~l~~r  106 (173)
T PRK06751         47 DFINCVIWRK------QAENVANYLKKGSLAGVDGRLQTRNYEGQDGKRVYVTEVLAESVQFLEPR  106 (173)
T ss_pred             EEEEEEEeCc------HHHHHHHHcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEeCcCC
Confidence            3566776532      223356679999999999999754221 23444 3499999999998753

>PRK02801 primosomal replication protein N; Provisional

Probab=82.41  E-value=28  Score=29.16  Aligned_cols=52  Identities=12%  Similarity=0.248  Sum_probs=33.5

Q ss_pred             EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEe
Q 013856          134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCV  193 (435)
Q Consensus       134 ~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vl  193 (435)
                      .|+|++-.+      ..-...+.+..||.|.|+|.+.. -....|.+ .+.|+++.|..+
T Consensus        49 ~i~~va~G~------~Ae~~~~~l~kGs~v~V~G~L~~-~~~~~g~~-~~~v~~~~i~~l  100 (101)
T PRK02801         49 RMPVIVSGN------QFQAITQSITVGSKITVQGFISC-HQGRNGLS-KLVLHAEQIELI  100 (101)
T ss_pred             EEEEEEEcH------HHHHHHhhcCCCCEEEEEEEEEE-eECCCCCE-EEEEEEEEEEEC
Confidence            488887642      22223457999999999999975 12222322 255999888765

>COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair]

Probab=82.34  E-value=8.3  Score=36.77  Aligned_cols=75  Identities=11%  Similarity=0.150  Sum_probs=52.8

Q ss_pred             EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856          106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV  185 (435)
Q Consensus       106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI  185 (435)
                      .|.+-|||.++..+-.+ .|++|.||++.|-|-.=.....    ....++.+.-+-.|.|.|.++.=       .|+..|
T Consensus        68 ~V~fVGvvrni~~~ttn-~~~~iEDGTG~Ievr~W~~~~~----~~e~~~d~~~~~yvkV~G~lk~F-------~GK~~I  135 (258)
T COG5235          68 NVQFVGVVRNIKTSTTN-SMFVIEDGTGSIEVRFWPGNSY----EEEQCKDLEEQNYVKVNGSLKTF-------NGKRSI  135 (258)
T ss_pred             eEEEEEEEEeeeecccc-eEEEEecCCceEEEEecCCCch----HHHhccccccccEEEEecceeee-------CCeeEE
Confidence            58899999999998745 7899999999999886543221    12345667788899999988631       244556


Q ss_pred             EEeEEEE
Q 013856          186 QIKKLYC  192 (435)
Q Consensus       186 ~v~~i~v  192 (435)
                      ...-|.-
T Consensus       136 ~~~~i~~  142 (258)
T COG5235         136 SASHISA  142 (258)
T ss_pred             ehhheee
Confidence            5544433

>PRK13480 3'-5' exoribonuclease YhaM; Provisional

Probab=82.15  E-value=13  Score=37.88  Aligned_cols=79  Identities=10%  Similarity=0.112  Sum_probs=54.5

Q ss_pred             CCEEEEEEEEeeec----cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCC
Q 013856          104 DQEVLIRGRVHTTR----PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGA  179 (435)
Q Consensus       104 g~~V~v~GrV~~~R----~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~  179 (435)
                      |+.|..-.-|.++.    +.|+.-..+.|.|.+|+|.+.+=..    +.   .....+..|++|.|.|.+..=       
T Consensus        11 g~~v~~~~lv~~~~~~~~knG~~yl~l~l~D~tG~I~ak~W~~----~~---~~~~~~~~g~vv~v~G~v~~y-------   76 (314)
T PRK13480         11 GEQVDHFLLIKSATKGVASNGKPFLTLILQDKSGDIEAKLWDV----SP---EDEATYVPETIVHVKGDIINY-------   76 (314)
T ss_pred             CCEeeEEEEEEEceeeecCCCCeEEEEEEEcCCcEEEEEeCCC----Ch---hhHhhcCCCCEEEEEEEEEEE-------
Confidence            55555555555433    3365555677889999999998532    11   235679999999999998632       


Q ss_pred             ceeEEEEEeEEEEeecC
Q 013856          180 TQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       180 t~~lEI~v~~i~vls~~  196 (435)
                      .|.+.|.+..|..+.+.
T Consensus        77 ~g~~Ql~i~~i~~~~~~   93 (314)
T PRK13480         77 RGRKQLKVNQIRLATEE   93 (314)
T ss_pred             CCcceEEEEEeEECCCC
Confidence            14577889999988764

>PRK12366 replication factor A; Reviewed

Probab=82.03  E-value=7.3  Score=43.37  Aligned_cols=94  Identities=11%  Similarity=0.119  Sum_probs=62.6

Q ss_pred             ceeEeccccCCCCCCEEEEEEEEeeec---------cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCc
Q 013856           91 EWTEVGALNGSLKDQEVLIRGRVHTTR---------PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNES  161 (435)
Q Consensus        91 ~~~~i~~l~~~~~g~~V~v~GrV~~~R---------~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~es  161 (435)
                      ....|++|.+-..|..++|+|||.++-         ..| ++.=+.|.|++++|.+++-...  .     +....|..|+
T Consensus       278 ~~~pI~~L~~~~~g~~~~I~grV~~~~~~R~f~~~~g~g-kv~s~~l~D~tG~IR~t~w~~~--~-----d~~~~l~~G~  349 (637)
T PRK12366        278 EIVNIEELTEFEDGEEVDVKGRIIAISDKREVERDDRTA-EVQDIELADGTGRVRVSFWGEK--A-----KILENLKEGD  349 (637)
T ss_pred             CceeHHHCCcccCCCEEEEEEEEEecCCceEEEcCCCcE-EEEEEEEEcCCCeEEEEEeCch--h-----hhhcccCCCC
Confidence            346777776533688999999999863         235 7777899999999999997531  1     1123568999


Q ss_pred             eEEEEEEEecCCccCCCCceeEEEEEeEEEEe
Q 013856          162 IVDVIGVVSVPDVEIKGATQQVEVQIKKLYCV  193 (435)
Q Consensus       162 iV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vl  193 (435)
                      ++.|.|-..+.-... ...+++||.+..-..+
T Consensus       350 vy~is~~~vk~y~~~-~~~~~~El~~~~~s~I  380 (637)
T PRK12366        350 AVKIENCKVRTYYDN-EGEKRVDLNAGYSSEI  380 (637)
T ss_pred             EEEEecCEEeecccc-CCCcCEEEEcCCceEE
Confidence            999988655411111 1124588888654433

>PRK06293 single-stranded DNA-binding protein; Provisional

Probab=81.42  E-value=39  Score=31.00  Aligned_cols=59  Identities=15%  Similarity=0.126  Sum_probs=38.5

Q ss_pred             CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856          132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      +.-+.|++-.+      ......+.|++||.|.|+|.+....- ...+.+ ..++|.+..|.+|+-.
T Consensus        42 T~wi~v~awg~------~Ae~v~~yL~KG~~V~VeGrL~~~~y~dkdG~kr~~~eIva~~I~fl~~~  102 (161)
T PRK06293         42 TVWCRCNIWGN------RYDKMLPYLKKGSGVIVAGEMSPESYVDKDGSPQSSLVVSVDTIKFSPFG  102 (161)
T ss_pred             eEEEEEEEEhH------HHHHHHHhCCCCCEEEEEEEEEeCccCCCCCCEEEEEEEEEeEEEECcCC
Confidence            34566766532      11223466999999999999974321 223444 3499999999998544

>PF03590 AsnA: Aspartate-ammonia ligase; InterPro: IPR004618 Aspartate--ammonia ligase (asparagine synthetase) 6

Probab=81.18  E-value=9.8  Score=37.00  Aligned_cols=118  Identities=14%  Similarity=0.224  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHhh-----cCCeeeecCceeeecCCC-----CCcc---eeeeccC-CCceeeccChHHHHhhhcc-CCC--
Q 013856          252 SQVGNIFRQFLL-----SENFVEIHTPKLIAGSSE-----GGSA---VFRLDYK-GQSACLAQSPQLHKQMSIC-GDF--  314 (435)
Q Consensus       252 s~i~~~~R~fl~-----~~gF~EV~TP~l~~~~~e-----gga~---~F~~~~~-~~~~~L~~Spql~lq~li~-~g~--  314 (435)
                      ...+..+.++|.     ..+.+.|..|+++...++     .|.+   .|.+..+ +..+-.-+|=--||.+++. -||  
T Consensus         7 q~aI~~iK~~F~~~L~~~LnL~rVsAPLfv~~~sGlNDnLnG~ErpVsF~~k~~~~~~~EIVhSLAKWKR~aL~~y~f~~   86 (244)
T PF03590_consen    7 QKAIKFIKDTFERELSKALNLTRVSAPLFVEKGSGLNDNLNGVERPVSFDIKDIPDETAEIVHSLAKWKRMALKRYGFPP   86 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-EEE----SEEETTSS-S--TTST----EE--TTSTT--EEE-S--TTHHHHHHHHTT--T
T ss_pred             HHHHHHHHHHHHHHHHHHhCceEecCCeEEecCCCCcCCCCCeEeeEEEEccCCCCceeeeehhHHHHHHHHHHHcCCCC
Confidence            344556666664     469999999999875432     1433   3666555 6788888999999998874 244  


Q ss_pred             -ceeEEEeccee-cCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856          315 -GRVFETGPVFR-AEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN  370 (435)
Q Consensus       315 -~rVfeIgp~FR-~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~  370 (435)
                       +.+|+=....| .|..-++.|--=.-|-|||+.+.. -+--++.+.+.+..|+..+.
T Consensus        87 geGlyTdMnAiR~~de~ld~~HSiYVDQWDWEkvI~~-~~Rnl~~Lk~tV~~Iy~aik  143 (244)
T PF03590_consen   87 GEGLYTDMNAIRPDDEELDNIHSIYVDQWDWEKVISK-EDRNLEFLKETVRKIYKAIK  143 (244)
T ss_dssp             T-EEEEEEEEE-TT-SS--SS--SEEEEEEEEEE--T-T--SHHHHHHHHHHHHHHHH
T ss_pred             CceEeecCceeecchhccCcceEEEecccCHhhhcCc-ccccHHHHHHHHHHHHHHHH
Confidence             68999999999 887568899888999999999875 34566777777777777665

3.1.1 from EC catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. This family represents one of two non-homologous forms of aspartate--ammonia ligase found in Escherichia coli. This type is also found in Haemophilus influenzae, Treponema pallidum and Lactobacillus delbrueckii, but appears to have a very limited distribution. The fact that the protein from the H. influenzae is more than 70% identical to that from the spirochete T. pallidum, but less than 65% identical to that from the closely related E. coli, strongly suggests lateral transfer.; GO: 0004071 aspartate-ammonia ligase activity, 0006529 asparagine biosynthetic process, 0005737 cytoplasm; PDB: 11AS_B 12AS_A.

>PRK07135 dnaE DNA polymerase III DnaE; Validated

Probab=80.87  E-value=6.9  Score=45.56  Aligned_cols=62  Identities=10%  Similarity=0.102  Sum_probs=49.9

Q ss_pred             CCCEEEEEEEEeeecc---CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856          103 KDQEVLIRGRVHTTRP---VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus       103 ~g~~V~v~GrV~~~R~---~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      .++.|+|.|.|.++|.   .|+.|+|+.|.|.++.+.+++..+       .++....+..++++.|+|....
T Consensus       896 ~~~~~~v~g~i~~~~~~~K~g~~maf~~~eD~~~~~e~~~F~~-------~~~~~~~l~~~~~~~~~~~~~~  960 (973)
T PRK07135        896 INTEYRLAIEVKNVKRLRKANKEYKKVILSDDSVEITIFVNDN-------DYLLFETLKKGDIYEFLISKSK  960 (973)
T ss_pred             CCCeEEEEEEEEEEEEEeeCCCeEEEEEEEECCCcEEEEEcHH-------HHHHHHHhhcCCEEEEEEEEcC
Confidence            4678999999998654   477899999999999999999843       2333445888999999998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	435
1asy_A	490	Class Ii Aminoacyl Transfer Rna Synthetases: Crysta		2e-83
1eov_A	487	Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.1		3e-83
3i7f_A	548	Aspartyl Trna Synthetase From Entamoeba Histolytica		1e-72
3nel_A	438	Aspartyl-Trna Synthetase Complexed With Aspartic Ac		1e-37
1b8a_A	438	Aspartyl-trna Synthetase Length = 438		3e-37
1wyd_A	429	Crystal Structure Of Aspartyl-Trna Synthetase From		5e-36
1n9w_A	422	Crystal Structure Of The Non-Discriminating And Arc		3e-31
1x54_A	434	Crystal Structure Of Asparaginyl-trna Synthetase Fr		1e-22
3m4p_A	456	Entamoeba Histolytica Asparaginyl-Trna Synthetase (		1e-18
2xti_A	437	Asparaginyl-Trna Synthetase From Brugia Malayi Comp		4e-13
2xgt_A	435	Asparaginyl-Trna Synthetase From Brugia Malayi Comp		4e-13
1efw_A	580	Crystal Structure Of Aspartyl-Trna Synthetase From		2e-12
1eqr_A	590	Crystal Structure Of Free Aspartyl-Trna Synthetase		6e-12
1c0a_A	585	Crystal Structure Of The E. Coli Aspartyl-Trna Synt		6e-12
4ah6_A	617	Human Mitochondrial Aspartyl-Trna Synthetase Length		3e-10
1bbu_A	504	Lysyl-Trna Synthetase (Lyss) Complexed With Lysine		7e-10
1lyl_A	504	Lysyl-Trna Synthetase (Lysu) (E.C.6.1.1.6) Complexe		1e-08
4ex5_A	529	Crystal Structure Of Lysyl-Trna Synthetase Lysrs Fr		1e-06
3bju_A	521	Crystal Structure Of Tetrameric Form Of Human Lysyl		4e-05
4dpg_A	513	Crystal Structure Of Human Lysrs: P38/aimp2 Complex		4e-05
3e9h_A	493	Lysyl-Trna Synthetase From Bacillus Stearothermophi		1e-04

>pdb|1ASY|A Chain A, Class Ii Aminoacyl Transfer Rna Synthetases: Crystal Structure Of Yeast Aspartyl-Trna Synthetase Complexed With Trna Asp Length = 490

Iteration: 1
 Score =  306 bits (783), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 176/379 (46%), Positives = 234/379 (61%), Gaps = 19/379 (5%)
Query: 62  NNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGN 121
           +NYG +PL  +QS +  +TG+       +    V        D+EVL R RVH TR  G 
Sbjct: 6   DNYGKLPL--IQSRDSDRTGQ-------KRVKFVDLDEAKDSDKEVLFRARVHNTRQQGA 56
Query: 122 KLAFVVVRERVSTVQCLATV-KPDSVSKEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGAT 180
            LAF+ +R++ S +Q L    K  ++SK MV++  SL+ E               IK AT
Sbjct: 57  TLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKSAT 116
Query: 181 -QQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVID 238
            Q +E+ I K+Y +S   +  PI +EDASRSEAE E A      LP VN DTRL+ RVID
Sbjct: 117 VQNLEIHITKIYTISETPEALPILLEDASRSEAEAEAAG-----LPVVNLDTRLDYRVID 171
Query: 239 IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACL 298
           +RT+ NQ IFRIQ+ V  +FR++L ++ F E+HTPKL+   SEGGS+VF + Y    A L
Sbjct: 172 LRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKGKAYL 231
Query: 299 AQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIV 358
           AQSPQ +KQ  I  DF RV+E GPVFRAE+S THRH+ EFTGLD+EM  ++HY EV+D +
Sbjct: 232 AQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTL 291
Query: 359 DCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP--KTLRLTFEEGVQMLKDAGVEIDP 416
             LFV IF  L      E+E V KQYP E  K     K +RLT++EG++ML+ AG EI  
Sbjct: 292 SELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGD 351
Query: 417 LGDLNTESERKLGQLVLEK 435
             DL+TE+E+ LG+LV +K
Sbjct: 352 FEDLSTENEKFLGKLVRDK 370

>pdb|1EOV|A Chain A, Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.12) From Yeast Length = 487

Iteration: 1
 Score =  305 bits (782), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 176/379 (46%), Positives = 234/379 (61%), Gaps = 19/379 (5%)
Query: 62  NNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGN 121
           +NYG +PL  +QS +  +TG+       +    V        D+EVL R RVH TR  G 
Sbjct: 3   DNYGKLPL--IQSRDSDRTGQ-------KRVKFVDLDEAKDSDKEVLFRARVHNTRQQGA 53
Query: 122 KLAFVVVRERVSTVQCLATV-KPDSVSKEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGAT 180
            LAF+ +R++ S +Q L    K  ++SK MV++  SL+ E               IK AT
Sbjct: 54  TLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKSAT 113
Query: 181 -QQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVID 238
            Q +E+ I K+Y +S   +  PI +EDASRSEAE E A      LP VN DTRL+ RVID
Sbjct: 114 VQNLEIHITKIYTISETPEALPILLEDASRSEAEAEAAG-----LPVVNLDTRLDYRVID 168
Query: 239 IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACL 298
           +RT+ NQ IFRIQ+ V  +FR++L ++ F E+HTPKL+   SEGGS+VF + Y    A L
Sbjct: 169 LRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKGKAYL 228
Query: 299 AQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIV 358
           AQSPQ +KQ  I  DF RV+E GPVFRAE+S THRH+ EFTGLD+EM  ++HY EV+D +
Sbjct: 229 AQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTL 288
Query: 359 DCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP--KTLRLTFEEGVQMLKDAGVEIDP 416
             LFV IF  L      E+E V KQYP E  K     K +RLT++EG++ML+ AG EI  
Sbjct: 289 SELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGD 348
Query: 417 LGDLNTESERKLGQLVLEK 435
             DL+TE+E+ LG+LV +K
Sbjct: 349 FEDLSTENEKFLGKLVRDK 367

>pdb|3I7F|A Chain A, Aspartyl Trna Synthetase From Entamoeba Histolytica Length = 548

Iteration: 1
 Score =  270 bits (690), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 161/388 (41%), Positives = 226/388 (58%), Gaps = 43/388 (11%)
Query: 88  SGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVS 147
           +G ++TE+  L  ++ ++ V IR RV   R  GN + F+ +R+ + T Q L  +K +++S
Sbjct: 46  TGLKYTEIEELVPAMAEKTVTIRARVQAVRGKGN-MVFLFLRKGIYTCQALV-MKSETIS 103
Query: 148 KEMVRFVRSLSNEXXXXXXXXXXXXXXEIKGATQQ-VEVQIKKLYCVSRA-AKTPITIED 205
           KE V+F + +S E               I+ ATQQ VE+ +  +  VS A    P+ IED
Sbjct: 104 KEFVQFCQKISAESICDITGIVKAVEKPIEKATQQDVEIHVTSIAVVSLAEYPLPMQIED 163
Query: 206 AS-------RSEAEIEKASK---------EGVQLPR----------------------VN 227
            +       + E +I K  +         EG  L +                      V+
Sbjct: 164 LTFPSSVFKKQEEDIAKVDEKIAKFLKDNEGKDLTKRPLKDEYAKLLKEKASAQKYVKVS 223
Query: 228 QDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVF 287
           QDTRL+NR++D+RT+ N  IFRIQS    +FR+FL S+ FVEIHTPKLI  SSEGGS +F
Sbjct: 224 QDTRLDNRMLDLRTVTNIAIFRIQSACCGLFREFLTSQKFVEIHTPKLIGCSSEGGSNIF 283
Query: 288 RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI 347
            + Y  + A LAQSPQL+KQM+I GDF +VFE GPVFRAE+S T RHL EF GLD+EMEI
Sbjct: 284 EVKYFDRKAYLAQSPQLYKQMAIMGDFRKVFEVGPVFRAENSNTRRHLTEFEGLDIEMEI 343
Query: 348 KKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQML 407
            ++Y E +D+++ LF  IFD +      EL+ + KQYPFE L Y+P  LRLT++E ++ML
Sbjct: 344 VENYHECIDVMEKLFTFIFDEIPKRFPDELKVIRKQYPFEDLIYRP-FLRLTYKEAIEML 402
Query: 408 KDAGVEIDPLGDLNTESERKLGQLVLEK 435
           + +G  I    D  T  E KLG+L+  K
Sbjct: 403 RASGETIGDYDDFTTPQEVKLGELIKAK 430

>pdb|3NEL|A Chain A, Aspartyl-Trna Synthetase Complexed With Aspartic Acid Length = 438

Iteration: 1
 Score =  154 bits (388), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 107/334 (32%), Positives = 172/334 (51%), Gaps = 29/334 (8%)
Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEX 161
           L  Q+V + G V   + +G  + F+ +R+R   VQ  A  K   V  E+ + +  L +E 
Sbjct: 14  LNGQKVKVAGWVWEVKDLGG-IKFLWIRDRDGIVQITAPKK--KVDPELFKLIPKLRSED 70
Query: 162 XXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
                            A    E+  +K+  ++RA +TP+ ++   + +AE+        
Sbjct: 71  VVAVEGVVNFTPK----AKLGFEILPEKIVVLNRA-ETPLPLDPTGKVKAEL-------- 117
Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                  DTRL+NR +D+R      IF+I+S V    R F     F+EIHTPK+IA ++E
Sbjct: 118 -------DTRLDNRFMDLRRPEVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATE 170
Query: 282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
           GG+ +F + Y  + A LAQSPQL+KQ+ +     RV+E  P+FRAE+  T RHL E   +
Sbjct: 171 GGTELFPMKYFEEDAFLAQSPQLYKQIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSI 230
Query: 342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
           D EM   +   EVM  ++ L     + +     KEL+ +     FE  + K    R++++
Sbjct: 231 DSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILN----FELEEPKLPFPRVSYD 286
Query: 402 EGVQMLKDAGVEIDPLG-DLNTESERKLGQLVLE 434
           + +++L D G EI P G D++TE ER LG+ ++E
Sbjct: 287 KALEILGDLGKEI-PWGEDIDTEGERLLGKYMME 319

>pdb|1B8A|A Chain A, Aspartyl-trna Synthetase Length = 438

Iteration: 1
 Score =  152 bits (385), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 106/334 (31%), Positives = 172/334 (51%), Gaps = 29/334 (8%)
Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEX 161
           L  Q+V + G V   + +G  + F+ +R+R   VQ  A  K   V  E+ + +  L +E 
Sbjct: 14  LNGQKVKVAGWVWEVKDLGG-IKFLWIRDRDGIVQITAPKK--KVDPELFKLIPKLRSED 70
Query: 162 XXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
                            A    E+  +K+  ++RA +TP+ ++   + +AE+        
Sbjct: 71  VVAVEGVVNFTPK----AKLGFEILPEKIVVLNRA-ETPLPLDPTGKVKAEL-------- 117
Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                  DTRLNNR +D+R      IF+I+S V    R F     F+EIHTPK+IA ++E
Sbjct: 118 -------DTRLNNRFMDLRRPEVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATE 170
Query: 282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
           GG+ +F + Y  + A LA+SPQL+K++ +     RV+E  P+FRAE+  T RHL E   +
Sbjct: 171 GGTELFPMKYFEEDAFLAESPQLYKEIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSI 230
Query: 342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
           D EM   +   EVM  ++ L     + +     KEL+ +     FE  + K    R++++
Sbjct: 231 DSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILN----FELEEPKLPFPRVSYD 286
Query: 402 EGVQMLKDAGVEIDPLG-DLNTESERKLGQLVLE 434
           + +++L D G EI P G D++TE ER LG+ ++E
Sbjct: 287 KALEILGDLGKEI-PWGEDIDTEGERLLGKYMME 319

>pdb|1WYD|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From Sulfolobus Tokodaii Length = 429

Iteration: 1
 Score =  148 bits (374), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 103/326 (31%), Positives = 168/326 (51%), Gaps = 32/326 (9%)
Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXXX 164
           +EV+  G VH  R +G K  F+++R++    Q +       V K    F   +S E    
Sbjct: 17  KEVIWAGWVHLLRDLGGK-KFIILRDKTGLGQVV-------VDKNSSAF--GISQELTQE 66
Query: 165 XXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLP 224
                       K A + +E+  +++  +S+A K P+ ++ + + +A+I           
Sbjct: 67  SVIQVRGIVKADKRAPRGIELHAEEITLLSKA-KAPLPLDVSGKVKADI----------- 114
Query: 225 RVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGS 284
               DTRL  RV+D+R    Q + +IQS     FR+ L  E F+EI TPK+IA ++EGG+
Sbjct: 115 ----DTRLRERVLDLRRQEMQAVIKIQSLALKAFRETLYKEGFIEIFTPKIIASATEGGA 170
Query: 285 AVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
            +F + Y G+ A LAQSPQL+K++ + G   RVFE  P +RAE+S T  HL EF  +DVE
Sbjct: 171 QLFPVIYFGKEAFLAQSPQLYKEL-MAGVVERVFEVAPAWRAEESDTPFHLAEFISMDVE 229
Query: 345 MEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404
           M     Y++VM +++ +   I  ++    K+EL+ +     +EP + K    RL + E +
Sbjct: 230 MAF-ADYNDVMQLLEKILHNIVKTIKEEGKEELKILN----YEPPEVKIPIKRLKYTEAI 284
Query: 405 QMLKDAGVEIDPLGDLNTESERKLGQ 430
           ++L+  G  I    D+ T   R L +
Sbjct: 285 EILRSKGYNIKFGDDIGTPELRILNE 310

>pdb|1N9W|A Chain A, Crystal Structure Of The Non-Discriminating And Archaeal- Type Aspartyl-Trna Synthetase From Thermus Thermophilus Length = 422

Iteration: 1
 Score =  132 bits (332), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 104/334 (31%), Positives = 167/334 (50%), Gaps = 44/334 (13%)
Query: 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXXXX 164
           QEV + G +H  R +G ++ F+++R+R   VQ +       + +  +R VR L  E    
Sbjct: 14  QEVELLGFLHWRRDLG-RIQFLLLRDRSGVVQVVTGGLKLPLPESALR-VRGLVVENAK- 70
Query: 165 XXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAK-TPITIEDASRSEAEIEKASKEGVQL 223
                         A   +EVQ K++  +S A + TP+          EI K        
Sbjct: 71  --------------APGGLEVQAKEVEVLSPALEPTPV----------EIPKEEW----- 101
Query: 224 PRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGG 283
            R N DT L  R + +R    +   ++Q+ +   FR++L  ++F EI TPK++   +EGG
Sbjct: 102 -RANPDTLLEYRYVTLRGEKARAPLKVQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEGG 160
Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
           S +F +DY  + A LAQSPQL+KQ+ + G F RV+E  PV+R E+ +T RHL E+  LDV
Sbjct: 161 SGLFGVDYFEKRAYLAQSPQLYKQI-MVGVFERVYEVAPVWRMEEHHTSRHLNEYLSLDV 219
Query: 344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEG 403
           EM       ++M + + L   + +   N    E+  +   +P     +     RLT  E 
Sbjct: 220 EMGFIADEEDLMRLEEALLAEMLEEALNTAGDEIRLLGATWP----SFPQDIPRLTHAEA 275
Query: 404 VQMLKDAGVEID-PLG-DLNTESERKLGQLVLEK 435
            ++LK+   E+  P+G DL+ E+ER LG+   E+
Sbjct: 276 KRILKE---ELGYPVGQDLSEEAERLLGEYAKER 306

>pdb|1X54|A Chain A, Crystal Structure Of Asparaginyl-trna Synthetase From Pyrococcus Horikoshii Complexed With Asparaginyl-adenylate Length = 434

Iteration: 1
 Score =  104 bits (259), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 91/328 (27%), Positives = 153/328 (46%), Gaps = 30/328 (9%)
Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEX 161
           L  ++V + G V+T   VG K+ F+ +R+    VQ  A V  + V +E     + L  E 
Sbjct: 14  LDGKKVRLAGWVYTNMRVGKKI-FLWIRDSTGIVQ--AVVAKNVVGEETFEKAKKLGRES 70
Query: 162 XXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
                           GA    EV ++KL  +   ++ PI            E+AS E +
Sbjct: 71  SVIVEGIVKADERAPGGA----EVHVEKLEVIQAVSEFPIP--------ENPEQASPELL 118
Query: 222 QLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE 281
                     L+ R + IRT     I +++  +    R++LL + + E+  P L+ G+ E
Sbjct: 119 ----------LDYRHLHIRTPKASAIMKVKETLIMAAREWLLKDGWHEVFPPILVTGAVE 168
Query: 282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
           GG+ +F+L Y  + A L+QS QL+ + +I G   +V+   P FRAE S T RHL EF  L
Sbjct: 169 GGATLFKLKYFDKYAYLSQSAQLYLEAAIFG-LEKVWSLTPSFRAEKSRTRRHLTEFWHL 227
Query: 342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLK-YKPKTLRLTF 400
           ++E      + ++M + + L   +      + KKE+E          LK  +P   R+++
Sbjct: 228 ELEAAWMDLW-DIMKVEEELVSYMVQRTLELRKKEIEMFRDD--LTTLKNTEPPFPRISY 284
Query: 401 EEGVQMLKDAGVEIDPLGDLNTESERKL 428
           +E + +L+  GV ++   DL  + ER L
Sbjct: 285 DEAIDILQSKGVNVEWGDDLGADEERVL 312

>pdb|3M4P|A Chain A, Entamoeba Histolytica Asparaginyl-Trna Synthetase (Asnrs) In Complex With Asparaginyl-Adenylate Length = 456

Iteration: 1
 Score = 90.9 bits (224), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 78/336 (23%), Positives = 146/336 (43%), Gaps = 31/336 (9%)
Query: 100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSN 159
             L+ + V  +G  +  R     L FV +R+     QC+   K     +++    R  S 
Sbjct: 26  AGLEGKLVTFKGWAYHIRKARKTLIFVELRDGSGYCQCVIFGKELCEPEKVKLLTRECSL 85
Query: 160 EXXXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKE 219
           E                      +E+Q+ +   +    ++PI +E+    ++ I +    
Sbjct: 86  EITGRLNAYAGKNHPPEIADILNLEMQVTEWKVI---GESPIDLENIINKDSSIPQ---- 138
Query: 220 GVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS 279
                      ++ NR I IR+   Q + +++S++   FR++    +F EI  P ++   
Sbjct: 139 -----------KMQNRHIVIRSEHTQQVLQLRSEIQWYFRKYYHDNHFTEIQPPTIVKTQ 187
Query: 280 SEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFT 339
            EGGS +F+L Y  + A L QS QL+ + S+    G+ F     +RAE S T RHL E+ 
Sbjct: 188 CEGGSTLFKLQYFNEPAYLTQSSQLYLE-SVIASLGKSFCMLSSYRAEQSRTVRHLAEYL 246
Query: 340 GLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLT 399
            L+ E+     + ++++ ++ L  T+ D   NV     + + K  P   L  +P   R+T
Sbjct: 247 HLEAELPFIS-FEDLLNHLEDLVCTVID---NVMAVHGDKIRKMNPHLKLPTRPFK-RMT 301
Query: 400 FEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           + + ++   D G+       LN +   + G+ + EK
Sbjct: 302 YADAIKYCNDHGI-------LNKDKPFEYGEDISEK 330

>pdb|2XTI|A Chain A, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed With Atp:mg And L-Asp-Beta-Noh Adenylate:ppi:mg Length = 437

Iteration: 1
 Score = 72.8 bits (177), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 77/315 (24%), Positives = 132/315 (41%), Gaps = 35/315 (11%)
Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXX 162
           +++ V I+G +H  R  G  L F ++R+    +Q L   K       + +   +L+    
Sbjct: 12  RNERVCIKGWIHRMRRQGKSLMFFILRDGTGFLQVLLMDK-------LCQTYDALT---- 60
Query: 163 XXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQ 222
                       EI GA ++V            A      I D  +          + V 
Sbjct: 61  -----VNTECTVEIYGAIKEVPEG-------KEAPNGHELIADFWKIIGNAPPGGIDNVL 108
Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
               + D  L+NR + IR      + R+++      R+   +  +VE+  P L+    EG
Sbjct: 109 NEEASVDKMLDNRHLVIRGENAAALLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEG 168
Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
           GS +F LDY G+ + L QS QL+ +  I    G VF     +RAE S T RHL E+  ++
Sbjct: 169 GSTLFNLDYFGEQSFLTQSSQLYLETCI-PTLGDVFCIAQSYRAEKSRTRRHLAEYAHVE 227
Query: 343 VEMEIKKHYSEVMDIVDCLFVTIFDSL--NNVCKKELEAVAKQY--PFEPLKYKPKTLRL 398
            E        ++M+ ++ L     D L  +   KK LE +  ++  P  P       LR+
Sbjct: 228 AECPFIT-LDDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQPPERPF------LRM 280
Query: 399 TFEEGVQMLKDAGVE 413
            +++ ++ L++  VE
Sbjct: 281 EYKDAIKWLQEHNVE 295

>pdb|2XGT|A Chain A, Asparaginyl-Trna Synthetase From Brugia Malayi Complexed With The Sulphamoyl Analogue Of Asparaginyl-Adenylate Length = 435

Iteration: 1
 Score = 72.8 bits (177), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 77/315 (24%), Positives = 132/315 (41%), Gaps = 35/315 (11%)
Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEXX 162
           +++ V I+G +H  R  G  L F ++R+    +Q L   K       + +   +L+    
Sbjct: 10  RNERVCIKGWIHRMRRQGKSLMFFILRDGTGFLQVLLMDK-------LCQTYDALT---- 58
Query: 163 XXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQ 222
                       EI GA ++V            A      I D  +          + V 
Sbjct: 59  -----VNTECTVEIYGAIKEVPEG-------KEAPNGHELIADFWKIIGNAPPGGIDNVL 106
Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
               + D  L+NR + IR      + R+++      R+   +  +VE+  P L+    EG
Sbjct: 107 NEEASVDKMLDNRHLVIRGENAAALLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEG 166
Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
           GS +F LDY G+ + L QS QL+ +  I    G VF     +RAE S T RHL E+  ++
Sbjct: 167 GSTLFNLDYFGEQSFLTQSSQLYLETCI-PTLGDVFCIAQSYRAEKSRTRRHLAEYAHVE 225
Query: 343 VEMEIKKHYSEVMDIVDCLFVTIFDSL--NNVCKKELEAVAKQY--PFEPLKYKPKTLRL 398
            E        ++M+ ++ L     D L  +   KK LE +  ++  P  P       LR+
Sbjct: 226 AECPFIT-LDDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQPPERPF------LRM 278
Query: 399 TFEEGVQMLKDAGVE 413
            +++ ++ L++  VE
Sbjct: 279 EYKDAIKWLQEHNVE 293

>pdb|1EFW|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus Thermophilus Complexed To Trnaasp From Escherichia Coli Length = 580

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 81/302 (26%), Positives = 128/302 (42%), Gaps = 32/302 (10%)
Query: 95  VGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLA-TVKPDSVSKEMVRF 153
            G+L  +   +EV++ G V+  R +G  L F+ +R+R   VQ +A    P   + E VR 
Sbjct: 7   AGSLRETHVGEEVVLEGWVNRRRDLGG-LIFLDLRDREGLVQLVAHPASPAYATAERVR- 64
Query: 154 VRSLSNEXXXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEI 213
                                  + AT +VEV++  L  ++ A   P  ++   R     
Sbjct: 65  ----PEWVVRAKGLVRLRPEPNPRLATGRVEVELSALEVLAEAKTPPFPVDAGWR----- 115
Query: 214 EKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP 273
                 G +    +++ RL  R +D+R    Q   R++ +V      FL  E FV++ TP
Sbjct: 116 ------GEEEKEASEELRLKYRYLDLRRRRMQENLRLRHRVIKAIWDFLDREGFVQVETP 169
Query: 274 KLIAGSSEGGSAVFRLDYK---GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY 330
            L   + EG    F + Y+   G    L QSPQL KQM +     R F+    FR ED  
Sbjct: 170 FLTKSTPEGARD-FLVPYRHEPGLFYALPQSPQLFKQMLMVAGLDRYFQIARCFRDEDLR 228
Query: 331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLK 390
             R   +FT LD+EM   +   +V+++ + L   +F        +E   V    PF  L 
Sbjct: 229 ADRQ-PDFTQLDLEMSFVE-VEDVLELNERLMAHVF--------REALGVELPLPFPRLS 278
Query: 391 YK 392
           Y+
Sbjct: 279 YE 280

>pdb|1EQR|A Chain A, Crystal Structure Of Free Aspartyl-Trna Synthetase From Escherichia Coli Length = 590

Iteration: 1
 Score = 68.9 bits (167), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 68/255 (26%), Positives = 107/255 (41%), Gaps = 32/255 (12%)
Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L  S   Q+V + G V+  R +G+ L F+ +R+R   VQ      PD    + ++   
Sbjct: 7   GQLRLSHVGQQVTLCGWVNRRRDLGS-LIFIDMRDREGIVQVF--FDPDRA--DALKLAS 61
Query: 156 SLSNE---XXXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
            L NE                     AT ++EV    L  ++RA   P+     +  EA 
Sbjct: 62  ELRNEFCIQVTGTVRARDEKNINRDMATGEIEVLASSLTIINRADVLPLDSNHVNTEEA- 120
Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
                             RL  R +D+R        + ++++ ++ R+F+    F++I T
Sbjct: 121 ------------------RLKYRYLDLRRPEMAQRLKTRAKITSLVRRFMDDHGFLDIET 162
Query: 273 PKLIAGSSEGGSAVF---RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS 329
           P L   + EG        R+ +KG+   L QSPQL KQ+ +   F R ++    FR ED 
Sbjct: 163 PMLTKATPEGARDYLVPSRV-HKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFRDEDL 221
Query: 330 YTHRHLCEFTGLDVE 344
              R   EFT +DVE
Sbjct: 222 RADRQ-PEFTQIDVE 235

>pdb|1C0A|A Chain A, Crystal Structure Of The E. Coli Aspartyl-Trna Synthetase : Trnaasp : Aspartyl-Adenylate Complex Length = 585

Iteration: 1
 Score = 68.6 bits (166), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 68/255 (26%), Positives = 107/255 (41%), Gaps = 32/255 (12%)
Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L  S   Q+V + G V+  R +G+ L F+ +R+R   VQ      PD    + ++   
Sbjct: 7   GQLRLSHVGQQVTLCGWVNRRRDLGS-LIFIDMRDREGIVQVF--FDPDRA--DALKLAS 61
Query: 156 SLSNE---XXXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
            L NE                     AT ++EV    L  ++RA   P+     +  EA 
Sbjct: 62  ELRNEFCIQVTGTVRARDEKNINRDMATGEIEVLASSLTIINRADVLPLDSNHVNTEEA- 120
Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
                             RL  R +D+R        + ++++ ++ R+F+    F++I T
Sbjct: 121 ------------------RLKYRYLDLRRPEMAQRLKTRAKITSLVRRFMDDHGFLDIET 162
Query: 273 PKLIAGSSEGGSAVF---RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS 329
           P L   + EG        R+ +KG+   L QSPQL KQ+ +   F R ++    FR ED 
Sbjct: 163 PMLTKATPEGARDYLVPSRV-HKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFRDEDL 221
Query: 330 YTHRHLCEFTGLDVE 344
              R   EFT +DVE
Sbjct: 222 RADRQ-PEFTQIDVE 235

>pdb|4AH6|A Chain A, Human Mitochondrial Aspartyl-Trna Synthetase Length = 617

Iteration: 1
 Score = 63.2 bits (152), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 50/173 (28%), Positives = 82/173 (47%), Gaps = 24/173 (13%)
Query: 177 KGATQQVEVQIKKLYCVSRAAKTPITIED-ASRSEAEIEKASKEGVQLPRVNQDTRLNNR 235
           K  T ++E+++K    ++   K P  I++   ++EA                   RL  R
Sbjct: 94  KMPTGEIEIKVKTAELLNACKKLPFEIKNFVKKTEA------------------LRLQYR 135
Query: 236 VIDIRTLANQGIFRIQSQVGNIFRQFLLS-ENFVEIHTPKLIAGSSEGGSAVFRLDYK-- 292
            +D+R+   Q   R++SQ+    R++L +   FV+I TP L    + GG+  F +  +  
Sbjct: 136 YLDLRSFQMQYNLRLRSQMVMKMREYLCNLHGFVDIETPTLFK-RTPGGAKEFLVPSREP 194
Query: 293 GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEM 345
           G+   L QSPQ  KQ+ + G   R F+    +R E S   R   EFT +D+EM
Sbjct: 195 GKFYSLPQSPQQFKQLLMVGGLDRYFQVARCYRDEGSRPDRQ-PEFTQIDIEM 246

>pdb|1BBU|A Chain A, Lysyl-Trna Synthetase (Lyss) Complexed With Lysine Length = 504

Iteration: 1
 Score = 62.0 bits (149), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 48/181 (26%), Positives = 89/181 (49%), Gaps = 14/181 (7%)
Query: 227 NQDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP--KLIAGSSEGG 283
           +Q+ R   R +D I    ++  F+++SQ+ +  RQF+++  F+E+ TP  ++I G +   
Sbjct: 161 DQEARYRQRYLDLISNDESRNTFKVRSQILSGIRQFMVNRGFMEVETPMMQVIPGGAAAR 220
Query: 284 SAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
             +   +       L  +P+L+ +  + G F RVFE    FR E   + RH  EFT +++
Sbjct: 221 PFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNE-GISVRHNPEFTMMEL 279
Query: 344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY--PFEPL-------KYKPK 394
            M     Y +++++ + LF T+   +    +     V   +  PFE L       KY+P+
Sbjct: 280 YMAYAD-YKDLIELTESLFRTLAQDILGKTEVTYGDVTLDFGKPFEKLTMREAIKKYRPE 338
Query: 395 T 395
           T
Sbjct: 339 T 339

>pdb|1LYL|A Chain A, Lysyl-Trna Synthetase (Lysu) (E.C.6.1.1.6) Complexed With Lysine Length = 504

Iteration: 1
 Score = 57.8 bits (138), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 88/183 (48%), Gaps = 18/183 (9%)
Query: 227 NQDTRLNNRVIDIRTLAN---QGIFRIQSQVGNIFRQFLLSENFVEIHTP--KLIAGSSE 281
           +Q+ R   R +D+  +AN   +  F ++S++    RQF+++  F+E+ TP  ++I G + 
Sbjct: 161 DQEVRYRQRYLDL--IANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGAS 218
Query: 282 GGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
               +   +       L  +P+L+ +  + G F RVFE    FR E   + RH  EFT +
Sbjct: 219 ARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNE-GISVRHNPEFTMM 277
Query: 342 DVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY--PFEPL-------KYK 392
           ++ M     Y +++++ + LF T+   +    K         +  PFE L       KY+
Sbjct: 278 ELYMAYAD-YHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYR 336
Query: 393 PKT 395
           P+T
Sbjct: 337 PET 339

>pdb|4EX5|A Chain A, Crystal Structure Of Lysyl-Trna Synthetase Lysrs From Burkholderia Thailandensis Bound To Lysine Length = 529

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 51/186 (27%), Positives = 77/186 (41%), Gaps = 18/186 (9%)
Query: 226 VNQDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEG 282
            +Q+TR   R +D I T   +  FR +++     R+F+   +F+E+ TP L  I G +  
Sbjct: 181 ADQETRYRQRYVDLIVTPETRTTFRARTKAIASIRKFMGDADFMEVETPMLHPIPGGAAA 240
Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
              V   +       L  +P+L+ +  I G F RVFE    FR E   + RH  EFT   
Sbjct: 241 KPFVTHHNALDMEMFLRIAPELYLKRLIVGGFERVFEINRNFRNE-GVSPRHNPEFT--- 296
Query: 343 VEMEIKKHYSE---VMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLT 399
             ME    Y++   +MD  + L       +       L     QY    L       RLT
Sbjct: 297 -MMEFYAAYTDYRWLMDFTERL-------IRQAAVDALGTATIQYQGRELDLAQPFHRLT 348
Query: 400 FEEGVQ 405
             + +Q
Sbjct: 349 ITQAIQ 354

>pdb|3BJU|A Chain A, Crystal Structure Of Tetrameric Form Of Human Lysyl-Trna Synthetase Length = 521

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 61/268 (22%), Positives = 102/268 (38%), Gaps = 43/268 (16%)
Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEX 161
           L D  + + GR+H  R  G KL F  +R     +Q +A  +     +E +     L    
Sbjct: 53  LTDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIHINNKLRRGD 112
Query: 162 XXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
                           G T++ E+ I                        EI   S    
Sbjct: 113 IIGVQGN--------PGKTKKGELSI---------------------IPYEITLLSPCLH 143
Query: 222 QLPRV-----NQDTRLNNRVIDIRTLANQGI---FRIQSQVGNIFRQFLLSENFVEIHTP 273
            LP +     +++TR   R +D+  + N  +   F I+S++    R FL    F+EI TP
Sbjct: 144 MLPHLHFGLKDKETRYRQRYLDL--ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETP 201
Query: 274 --KLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT 331
              +I G +     +   +    +  +  +P+L+ +M + G   RV+E G  FR E    
Sbjct: 202 MMNIIPGGAVAKPFITYHNELDMNLYMRIAPELYHKMLVVGGIDRVYEIGRQFRNE-GID 260
Query: 332 HRHLCEFTGLDVEMEIKKHYSEVMDIVD 359
             H  EFT  +  M     Y ++M+I +
Sbjct: 261 LTHNPEFTTCEFYMAYAD-YHDLMEITE 287

>pdb|4DPG|A Chain A, Crystal Structure Of Human Lysrs: P38/aimp2 Complex I Length = 513

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 61/268 (22%), Positives = 102/268 (38%), Gaps = 43/268 (16%)
Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNEX 161
           L D  + + GR+H  R  G KL F  +R     +Q +A  +     +E +     L    
Sbjct: 53  LTDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIHINNKLRRGD 112
Query: 162 XXXXXXXXXXXXXEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
                           G T++ E+ I                        EI   S    
Sbjct: 113 IIGVQGN--------PGKTKKGELSI---------------------IPYEITLLSPCLH 143
Query: 222 QLPRV-----NQDTRLNNRVIDIRTLANQGI---FRIQSQVGNIFRQFLLSENFVEIHTP 273
            LP +     +++TR   R +D+  + N  +   F I+S++    R FL    F+EI TP
Sbjct: 144 MLPHLHFGLKDKETRYRQRYLDL--ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETP 201
Query: 274 --KLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT 331
              +I G +     +   +    +  +  +P+L+ +M + G   RV+E G  FR E    
Sbjct: 202 MMNIIPGGAVAKPFITYHNELDMNLYMRIAPELYHKMLVVGGIDRVYEIGRQFRNE-GID 260
Query: 332 HRHLCEFTGLDVEMEIKKHYSEVMDIVD 359
             H  EFT  +  M     Y ++M+I +
Sbjct: 261 LTHNPEFTTCEFYMAYAD-YHDLMEITE 287

>pdb|3E9H|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus Complexed With L-Lysylsulfamoyl Adenosine Length = 493

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/140 (25%), Positives = 66/140 (47%), Gaps = 5/140 (3%)
Query: 229 DTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSA 285
           + R   R +D I    ++  F  +S +    R++L S  ++E+ TP +  +AG +     
Sbjct: 154 EQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPF 213
Query: 286 VFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEM 345
           +   +    +  +  + +LH +  I G   +V+E G VFR E   T RH  EFT L++  
Sbjct: 214 ITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGIST-RHNPEFTMLEL-Y 271
Query: 346 EIKKHYSEVMDIVDCLFVTI 365
           E    + ++M + + L   I
Sbjct: 272 EAYADFRDIMKLTENLIAHI 291

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	435
1eov_A	487	ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA sy	1e-147
3i7f_A	548	Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-bi	1e-141
3nem_A	438	Aspartyl-tRNA synthetase; rossmann fold, OB fold,	1e-135
1wyd_A	429	Hypothetical aspartyl-tRNA synthetase; archaea, LI	1e-120
1n9w_A	422	Aspartyl-tRNA synthetase 2; biosynthetic protein;	1e-117
1x54_A	434	Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthe	6e-71
2xgt_A	435	Asparaginyl-tRNA synthetase, cytoplasmic; ligase,	5e-61
3m4p_A	456	Ehasnrs, asparaginyl-tRNA synthetase, putative; am	6e-61
1nnh_A	294	Asparaginyl-tRNA synthetase-related peptide; struc	5e-44
1l0w_A	580	Aspartyl-tRNA synthetase; space-grown crystal, dim	2e-28
1c0a_A	585	Aspartyl tRNA synthetase; protein-RNA complex, lig	7e-24
3bju_A	521	Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase,	2e-13
3a5y_A	345	GENX, putative lysyl-tRNA synthetase; aminoacyl-tR	8e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
3a74_A	493	Lysyl-tRNA synthetase; aminoacyl tRNA synthetase,	9e-07
1e1o_A	504	Lysyl-tRNA synthetase, heat inducible; ligase, ami	3e-06
4ex5_A	529	Lysine--tRNA ligase; structural genomics, niaid, n	1e-05
3qtc_A	290	Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthet	1e-04

>1eov_A ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA synthetase, tRNA ligase, APO-enzyme, OB-fold,; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.1 d.104.1.1 PDB: 1asy_A* 1asz_A* Length = 487

 Score =  427 bits (1100), Expect = e-147
 Identities = 178/381 (46%), Positives = 239/381 (62%), Gaps = 21/381 (5%)

Query: 61  ANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALN-GSLKDQEVLIRGRVHTTRPV 119
            +NYG +PL + +  +            G++  +   L+     D+EVL R RVH TR  
Sbjct: 2   KDNYGKLPLIQSRDSDRT----------GQKRVKFVDLDEAKDSDKEVLFRARVHNTRQQ 51

Query: 120 GNKLAFVVVRERVSTVQCLATVK-PDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG 178
           G  LAF+ +R++ S +Q L       ++SK MV++  SL+ ESIV V G+V   D  IK 
Sbjct: 52  GATLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKS 111

Query: 179 ATQQ-VEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRV 236
           AT Q +E+ I K+Y +S   +  PI +EDASRSEAE E A       P VN DTRL+ RV
Sbjct: 112 ATVQNLEIHITKIYTISETPEALPILLEDASRSEAEAEAAGL-----PVVNLDTRLDYRV 166

Query: 237 IDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSA 296
           ID+RT+ NQ IFRIQ+ V  +FR++L ++ F E+HTPKL+   SEGGS+VF + Y    A
Sbjct: 167 IDLRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKGKA 226

Query: 297 CLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMD 356
            LAQSPQ +KQ  I  DF RV+E GPVFRAE+S THRH+ EFTGLD+EM  ++HY EV+D
Sbjct: 227 YLAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLD 286

Query: 357 IVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY--KPKTLRLTFEEGVQMLKDAGVEI 414
            +  LFV IF  L      E+E V KQYP E  K     K +RLT++EG++ML+ AG EI
Sbjct: 287 TLSELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEI 346

Query: 415 DPLGDLNTESERKLGQLVLEK 435
               DL+TE+E+ LG+LV +K
Sbjct: 347 GDFEDLSTENEKFLGKLVRDK 367

>3i7f_A Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-binding, aminoacyl-tRNA synthetase, LI nucleotide-binding, protein biosynthesis; 2.80A {Entamoeba histolytica} Length = 548

 Score =  413 bits (1062), Expect = e-141
 Identities = 166/444 (37%), Positives = 240/444 (54%), Gaps = 57/444 (12%)

Query: 32  KKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGRE 91
             A  + +K                E     N+  +P+ + Q              +G +
Sbjct: 4   SMAATQEKKPQLPPVVLLK----TPELVSGENFKVMPMHQSQP----------CYKTGLK 49

Query: 92  WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV 151
           +TE+  L  ++ ++ V IR RV   R  G  + F+ +R+ + T Q L  +K +++SKE V
Sbjct: 50  YTEIEELVPAMAEKTVTIRARVQAVRGKG-NMVFLFLRKGIYTCQALV-MKSETISKEFV 107

Query: 152 RFVRSLSNESIVDVIGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRAAKT-PITIEDASRS 209
           +F + +S ESI D+ G+V   +  I+ ATQQ VE+ +  +  VS A    P+ IED +  
Sbjct: 108 QFCQKISAESICDITGIVKAVEKPIEKATQQDVEIHVTSIAVVSLAEYPLPMQIEDLTFP 167

Query: 210 EAEIEKAS--------------------------------------KEGVQLPRVNQDTR 231
            +  +K                                            +  +V+QDTR
Sbjct: 168 SSVFKKQEEDIAKVDEKIAKFLKDNEGKDLTKRPLKDEYAKLLKEKASAQKYVKVSQDTR 227

Query: 232 LNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY 291
           L+NR++D+RT+ N  IFRIQS    +FR+FL S+ FVEIHTPKLI  SSEGGS +F + Y
Sbjct: 228 LDNRMLDLRTVTNIAIFRIQSACCGLFREFLTSQKFVEIHTPKLIGCSSEGGSNIFEVKY 287

Query: 292 KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY 351
             + A LAQSPQL+KQM+I GDF +VFE GPVFRAE+S T RHL EF GLD+EMEI ++Y
Sbjct: 288 FDRKAYLAQSPQLYKQMAIMGDFRKVFEVGPVFRAENSNTRRHLTEFEGLDIEMEIVENY 347

Query: 352 SEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAG 411
            E +D+++ LF  IFD +      EL+ + KQYPFE L Y+P  LRLT++E ++ML+ +G
Sbjct: 348 HECIDVMEKLFTFIFDEIPKRFPDELKVIRKQYPFEDLIYRP-FLRLTYKEAIEMLRASG 406

Query: 412 VEIDPLGDLNTESERKLGQLVLEK 435
             I    D  T  E KLG+L+  K
Sbjct: 407 ETIGDYDDFTTPQEVKLGELIKAK 430

>3nem_A Aspartyl-tRNA synthetase; rossmann fold, OB fold, ligase; HET: AMO ATP; 1.89A {Thermococcus kodakarensis} PDB: 3nel_A* 3nen_A 1b8a_A* Length = 438

 Score =  394 bits (1015), Expect = e-135
 Identities = 104/347 (29%), Positives = 167/347 (48%), Gaps = 29/347 (8%)

Query: 90  REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE 149
                   +   L  Q+V + G V   + +G  + F+ +R+R   VQ   T     V  E
Sbjct: 2   YRTHYSSEITEELNGQKVKVAGWVWEVKDLG-GIKFLWIRDRDGIVQI--TAPKKKVDPE 58

Query: 150 MVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASR 208
           + + +  L +E +V V GVV         A    E+  +K+  ++RA    P+      +
Sbjct: 59  LFKLIPKLRSEDVVAVEGVV----NFTPKAKLGFEILPEKIVVLNRAETPLPLDPTGKVK 114

Query: 209 SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFV 268
                               DTRL+NR +D+R      IF+I+S V    R F     F+
Sbjct: 115 -----------------AELDTRLDNRFMDLRRPEVMAIFKIRSSVFKAVRDFFHENGFI 157

Query: 269 EIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED 328
           EIHTPK+IA ++EGG+ +F + Y  + A LAQSPQL+KQ+ +     RV+E  P+FRAE+
Sbjct: 158 EIHTPKIIATATEGGTELFPMKYFEEDAFLAQSPQLYKQIMMASGLDRVYEIAPIFRAEE 217

Query: 329 SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP 388
             T RHL E   +D EM   +   EVM  ++ L     + +     KEL+ +  +     
Sbjct: 218 HNTTRHLNEAWSIDSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILNFELEEPK 277

Query: 389 LKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           L +     R+++++ +++L D G EI    D++TE ER LG+ ++E 
Sbjct: 278 LPFP----RVSYDKALEILGDLGKEIPWGEDIDTEGERLLGKYMMEN 320

>1wyd_A Hypothetical aspartyl-tRNA synthetase; archaea, LIGA; HET: EPE; 2.30A {Sulfolobus tokodaii} Length = 429

 Score =  356 bits (915), Expect = e-120
 Identities = 99/342 (28%), Positives = 169/342 (49%), Gaps = 34/342 (9%)

Query: 90  REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE 149
                +  +      +EV+  G VH  R +G    F+++R++    Q +        +  
Sbjct: 2   YRSHFIADVTPEYDGKEVIWAGWVHLLRDLG-GKKFIILRDKTGLGQVVV-----DKNSS 55

Query: 150 MVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASR 208
                + L+ ES++ V G+V       K A + +E+  +++  +S+A    P+ +    +
Sbjct: 56  AFGISQELTQESVIQVRGIV----KADKRAPRGIELHAEEITLLSKAKAPLPLDVSGKVK 111

Query: 209 SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFV 268
           +                 + DTRL  RV+D+R    Q + +IQS     FR+ L  E F+
Sbjct: 112 A-----------------DIDTRLRERVLDLRRQEMQAVIKIQSLALKAFRETLYKEGFI 154

Query: 269 EIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED 328
           EI TPK+IA ++EGG+ +F + Y G+ A LAQSPQL+K++ + G   RVFE  P +RAE+
Sbjct: 155 EIFTPKIIASATEGGAQLFPVIYFGKEAFLAQSPQLYKEL-MAGVVERVFEVAPAWRAEE 213

Query: 329 SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP 388
           S T  HL EF  +DVEM     Y++VM +++ +   I  ++    K+EL+ +  + P   
Sbjct: 214 SDTPFHLAEFISMDVEMAF-ADYNDVMQLLEKILHNIVKTIKEEGKEELKILNYEPPEVK 272

Query: 389 LKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQ 430
           +  K    RL + E +++L+  G  I    D+ T   R L +
Sbjct: 273 IPIK----RLKYTEAIEILRSKGYNIKFGDDIGTPELRILNE 310

>1n9w_A Aspartyl-tRNA synthetase 2; biosynthetic protein; 2.30A {Thermus thermophilus} SCOP: b.40.4.1 d.104.1.1 PDB: 3kfu_A* Length = 422

 Score =  347 bits (893), Expect = e-117
 Identities = 100/333 (30%), Positives = 161/333 (48%), Gaps = 40/333 (12%)

Query: 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
            QEV + G +H  R +G ++ F+++R+R   VQ +                +    ES +
Sbjct: 13  GQEVELLGFLHWRRDLG-RIQFLLLRDRSGVVQVVTGGL------------KLPLPESAL 59

Query: 164 DVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQ 222
            V G+V    VE   A   +EVQ K++  +S A +  P+ I                   
Sbjct: 60  RVRGLV----VENAKAPGGLEVQAKEVEVLSPALEPTPVEIPKEEW-------------- 101

Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
             R N DT L  R + +R    +   ++Q+ +   FR++L  ++F EI TPK++   +EG
Sbjct: 102 --RANPDTLLEYRYVTLRGEKARAPLKVQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEG 159

Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
           GS +F +DY  + A LAQSPQL+KQ+ +   F RV+E  PV+R E+ +T RHL E+  LD
Sbjct: 160 GSGLFGVDYFEKRAYLAQSPQLYKQIMVGV-FERVYEVAPVWRMEEHHTSRHLNEYLSLD 218

Query: 343 VEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEE 402
           VEM       ++M + + L   + +   N    E+  +   +P  P        RLT  E
Sbjct: 219 VEMGFIADEEDLMRLEEALLAEMLEEALNTAGDEIRLLGATWPSFPQDIP----RLTHAE 274

Query: 403 GVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
             ++LK+  +      DL+ E+ER LG+   E+
Sbjct: 275 AKRILKE-ELGYPVGQDLSEEAERLLGEYAKER 306

>1x54_A Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken structural genomics/proteom initiative, RSGI, structural genomics, ligase; HET: 4AD; 1.45A {Pyrococcus horikoshii} PDB: 1x55_A* 1x56_A Length = 434

 Score =  229 bits (586), Expect = 6e-71
 Identities = 89/341 (26%), Positives = 155/341 (45%), Gaps = 30/341 (8%)

Query: 91  EWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEM 150
           E      +   L  ++V + G V+T   VG K  F+ +R+    VQ    V  + V +E 
Sbjct: 3   EKVYCQEVKPELDGKKVRLAGWVYTNMRVG-KKIFLWIRDSTGIVQA--VVAKNVVGEET 59

Query: 151 VRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSE 210
               + L  ES V V G+V       + A    EV ++KL  +   ++ PI         
Sbjct: 60  FEKAKKLGRESSVIVEGIV----KADERAPGGAEVHVEKLEVIQAVSEFPIPE------- 108

Query: 211 AEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEI 270
                         + + +  L+ R + IRT     I +++  +    R++LL + + E+
Sbjct: 109 -----------NPEQASPELLLDYRHLHIRTPKASAIMKVKETLIMAAREWLLKDGWHEV 157

Query: 271 HTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY 330
             P L+ G+ EGG+ +F+L Y  + A L+QS QL+ + +I G   +V+   P FRAE S 
Sbjct: 158 FPPILVTGAVEGGATLFKLKYFDKYAYLSQSAQLYLEAAIFG-LEKVWSLTPSFRAEKSR 216

Query: 331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYP-FEPL 389
           T RHL EF  L++E        ++M + + L   +      + KKE+E         +  
Sbjct: 217 TRRHLTEFWHLELEAAW-MDLWDIMKVEEELVSYMVQRTLELRKKEIEMFRDDLTTLKNT 275

Query: 390 KYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQ 430
             +P   R++++E + +L+  GV ++   DL  + ER L +
Sbjct: 276 --EPPFPRISYDEAIDILQSKGVNVEWGDDLGADEERVLTE 314

>2xgt_A Asparaginyl-tRNA synthetase, cytoplasmic; ligase, ATP-binding, protein biosynthesis; HET: NSS; 1.90A {Brugia malayi} PDB: 2xti_A* Length = 435

 Score =  203 bits (519), Expect = 5e-61
 Identities = 77/341 (22%), Positives = 137/341 (40%), Gaps = 47/341 (13%)

Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
           +++ V I+G +H  R  G  L F ++R+    +Q    +              +++ E  
Sbjct: 10  RNERVCIKGWIHRMRRQGKSLMFFILRDGTGFLQV--LLMDKLCQTYDAL---TVNTECT 64

Query: 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQ 222
           V++ G +     E K A    E+       +  A    I                   V 
Sbjct: 65  VEIYGAI-KEVPEGKEAPNGHELIADFWKIIGNAPPGGIDN-----------------VL 106

Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
               + D  L+NR + IR      + R+++      R+   +  +VE+  P L+    EG
Sbjct: 107 NEEASVDKMLDNRHLVIRGENAAALLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEG 166

Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
           GS +F LDY G+ + L QS QL+ +  I    G VF     +RAE S T RHL E+  ++
Sbjct: 167 GSTLFNLDYFGEQSFLTQSSQLYLETCIPT-LGDVFCIAQSYRAEKSRTRRHLAEYAHVE 225

Query: 343 VEMEIKKHYSEVMDIVDCLFVTIFDSL--NNVCKKELEAVAKQY-----PFEPLKYKPKT 395
            E        ++M+ ++ L     D L  +   KK LE +  ++     PF         
Sbjct: 226 AECPFITL-DDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQPPERPFL-------- 276

Query: 396 LRLTFEEGVQMLKDAGVEIDPLG------DLNTESERKLGQ 430
            R+ +++ ++ L++  VE +         D+   +ER +  
Sbjct: 277 -RMEYKDAIKWLQEHNVENEFGNTFTYGEDIAEAAERFMTD 316

>3m4p_A Ehasnrs, asparaginyl-tRNA synthetase, putative; aminoacyl-tRNA synthetase, tRNA ligase, AARS, translation, ATP-binding, nucleotide-binding; HET: 4AD; 2.83A {Entamoeba histolytica} PDB: 3m4q_A Length = 456

 Score =  204 bits (520), Expect = 6e-61
 Identities = 73/344 (21%), Positives = 145/344 (42%), Gaps = 45/344 (13%)

Query: 100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSN 159
             L+ + V  +G  +  R     L FV +R+     QC   +    + +     V+ L+ 
Sbjct: 26  AGLEGKLVTFKGWAYHIRKARKTLIFVELRDGSGYCQC--VIFGKELCEP--EKVKLLTR 81

Query: 160 ESIVDVIG-VVSVPD---VEIKGATQQVEVQIKKLYCVSRAA--KTPITIEDASRSEAEI 213
           E  +++ G + +               +E+Q+ +   +  +      I  +D+S      
Sbjct: 82  ECSLEITGRLNAYAGKNHPPEIADILNLEMQVTEWKVIGESPIDLENIINKDSSI----- 136

Query: 214 EKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP 273
                            ++ NR I IR+   Q + +++S++   FR++    +F EI  P
Sbjct: 137 ---------------PQKMQNRHIVIRSEHTQQVLQLRSEIQWYFRKYYHDNHFTEIQPP 181

Query: 274 KLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHR 333
            ++    EGGS +F+L Y  + A L QS QL+ +  I    G+ F     +RAE S T R
Sbjct: 182 TIVKTQCEGGSTLFKLQYFNEPAYLTQSSQLYLESVIAS-LGKSFCMLSSYRAEQSRTVR 240

Query: 334 HLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP 393
           HL E+  L+ E+     + ++++ ++ L  T+ D++  V   ++          P    P
Sbjct: 241 HLAEYLHLEAELPF-ISFEDLLNHLEDLVCTVIDNVMAVHGDKIRK------MNPHLKLP 293

Query: 394 KT--LRLTFEEGVQMLKDAGV--EIDPLG---DLNTESERKLGQ 430
                R+T+ + ++   D G+  +  P     D++ + ER++  
Sbjct: 294 TRPFKRMTYADAIKYCNDHGILNKDKPFEYGEDISEKPERQMTD 337

>1nnh_A Asparaginyl-tRNA synthetase-related peptide; structural genomics, PSI, protein structure initiative, southeast COLL for structural genomics; 1.65A {Pyrococcus furiosus} SCOP: d.104.1.1 PDB: 3p8t_A 3p8v_A 3p8y_A 3reu_A* 3rex_A* 3rl6_A* Length = 294

 Score =  154 bits (392), Expect = 5e-44
 Identities = 38/202 (18%), Positives = 66/202 (32%), Gaps = 31/202 (15%)

Query: 235 RVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP-------KLIAGSSEGGSAVF 287
             ++I +        IQ+++      F + E F  +           L    +  G    
Sbjct: 2   NAVEIISREISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPA 61

Query: 288 RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED--SYTHRHLCEFTGLDVEM 345
            ++  G    L  S  LHKQ++I     ++F   P  R E       RH  EFT LD E+
Sbjct: 62  EVEIYGVKMRLTHSMILHKQLAIAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEV 121

Query: 346 EIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ 405
           E +    ++M +++ L   +F        +E         FE            + E ++
Sbjct: 122 E-RAKMEDIMRLIERLVYGLFRKAEEWTGREFPKTK---RFE---------VFEYSEVLE 168

Query: 406 MLKDAGVEIDPLGDLNTESERK 427
                        D     E +
Sbjct: 169 EFGS---------DEKASQEME 181

>1l0w_A Aspartyl-tRNA synthetase; space-grown crystal, dimeric enzyme, flexible domains, ligase; 2.01A {Thermus thermophilus} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1efw_A* 1g51_A Length = 580

 Score =  116 bits (293), Expect = 2e-28
 Identities = 91/320 (28%), Positives = 138/320 (43%), Gaps = 59/320 (18%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G+L  +   +EV++ G V+  R +G  L F+ +R+R   VQ      P S +      VR
Sbjct: 8   GSLRETHVGEEVVLEGWVNRRRDLGG-LIFLDLRDREGLVQL--VAHPASPAYATAERVR 64

Query: 156 SLSNESIVDVIGVVSV-PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIE 214
               E +V   G+V + P+   + AT +VEV++  L  ++ A   P  ++   R E E E
Sbjct: 65  ---PEWVVRAKGLVRLRPEPNPRLATGRVEVELSALEVLAEAKTPPFPVDAGWRGEEEKE 121

Query: 215 KASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPK 274
                       +++ RL  R +D+R    Q   R++ +V      FL  E FV++ TP 
Sbjct: 122 -----------ASEELRLKYRYLDLRRRRMQENLRLRHRVIKAIWDFLDREGFVQVETPF 170

Query: 275 LIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAE 327
           L   + EG     R D+        G    L QSPQL KQM +     R F+    FR E
Sbjct: 171 LTKSTPEGA----R-DFLVPYRHEPGLFYALPQSPQLFKQMLMVAGLDRYFQIARCFRDE 225

Query: 328 DSYTHRHLCEFTGLDVEMEIKKHYS-----EVMDIVDCLFVTIFDSLNNVCKKELEAVAK 382
           D    R   +FT LD+EM      S     +V+++ + L   +F     V   EL     
Sbjct: 226 DLRADRQP-DFTQLDLEM------SFVEVEDVLELNERLMAHVFREALGV---ELPL--- 272

Query: 383 QYPFEPLKYKPKTLRLTFEE 402
             PF          RL++EE
Sbjct: 273 --PFP---------RLSYEE 281

>1c0a_A Aspartyl tRNA synthetase; protein-RNA complex, ligase/RNA complex; HET: 4SU H2U QUO G7M 5MU PSU AMP AMO; 2.40A {Escherichia coli} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1il2_A* 1eqr_A* Length = 585

 Score =  103 bits (259), Expect = 7e-24
 Identities = 81/322 (25%), Positives = 131/322 (40%), Gaps = 69/322 (21%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L  S   Q+V + G V+  R +G+ L F+ +R+R   VQ      PD    + ++   
Sbjct: 7   GQLRLSHVGQQVTLCGWVNRRRDLGS-LIFIDMRDREGIVQV--FFDPDR--ADALKLAS 61

Query: 156 SLSNESIVDVIGVVSV-PDVEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
            L NE  + V G V    +  I    AT ++EV    L  ++RA   P+           
Sbjct: 62  ELRNEFCIQVTGTVRARDEKNINRDMATGEIEVLASSLTIINRADVLPLDSNH------- 114

Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
                          ++ RL  R +D+R        + ++++ ++ R+F+    F++I T
Sbjct: 115 ------------VNTEEARLKYRYLDLRRPEMAQRLKTRAKITSLVRRFMDDHGFLDIET 162

Query: 273 PKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
           P L   + EG     R DY       KG+   L QSPQL KQ+ +   F R ++    FR
Sbjct: 163 PMLTKATPEGA----R-DYLVPSRVHKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFR 217

Query: 326 AEDSYTHRHLCEFTGLDVEMEIKKHYS-----EVMDIVDCLFVTIFDSLNNVCKKELEAV 380
            ED    R   EFT +DVE       S     +V ++++ L   ++  +  V   +L   
Sbjct: 218 DEDLRADRQP-EFTQIDVET------SFMTAPQVREVMEALVRHLWLEVKGV---DLG-- 265

Query: 381 AKQYPFEPLKYKPKTLRLTFEE 402
                F           +TF E
Sbjct: 266 ----DFP---------VMTFAE 274

>3bju_A Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP- binding, cytoplasm, ligase, nucleotide-binding, phosphoprotein, polymorphism; HET: LYS ATP; 2.31A {Homo sapiens} Length = 521

 Score = 71.4 bits (176), Expect = 2e-13
 Identities = 82/360 (22%), Positives = 133/360 (36%), Gaps = 77/360 (21%)

Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNES 161
           L D  + + GR+H  R  G KL F  +R     +Q +A  +     +E +     L    
Sbjct: 53  LTDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIHINNKLR--- 109

Query: 162 IVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
             D+IGV   P     G T++ E+ I                        EI   S    
Sbjct: 110 RGDIIGVQGNP-----GKTKKGELSII--------PY-------------EITLLSPCLH 143

Query: 222 QLPRV-----NQDTRLNNRVIDIRTLANQG---IFRIQSQVGNIFRQFLLSENFVEIHTP 273
            LP +     +++TR   R +D+  + N      F I+S++    R FL    F+EI TP
Sbjct: 144 MLPHLHFGLKDKETRYRQRYLDL--ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETP 201

Query: 274 KL--IAGSSEGGSAVFR--------LD---YKGQSACLAQSPQLHKQMSICGDFGRVFET 320
            +  I G   G  A  +        LD   Y      +  +P+L+ +M + G   RV+E 
Sbjct: 202 MMNIIPG---GAVA--KPFITYHNELDMNLY------MRIAPELYHKMLVVGGIDRVYEI 250

Query: 321 GPVFRAE--DSYTHRHLCEFTGLDVEMEI---KKHYSEVMDIVDCLFVTIFDSLNNVCKK 375
           G  FR E  D     H  EFT      E       Y ++M+I + +   +   +    K 
Sbjct: 251 GRQFRNEGID---LTHNPEFT----TCEFYMAYADYHDLMEITEKMVSGMVKHITGSYKV 303

Query: 376 ELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
                  +     + + P   R+   E ++  K  G+++       TE  RK+   +   
Sbjct: 304 TYHPDGPEGQAYDVDFTPPFRRINMVEELE--KALGMKLPETNLFETEETRKILDDICVA 361

>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase paralog, translation, lysyl- synthetase, lysyladenylate analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A* 3g1z_A* Length = 345

 Score = 56.0 bits (136), Expect = 8e-09
 Identities = 34/209 (16%), Positives = 59/209 (28%), Gaps = 50/209 (23%)

Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL---IAGSSEGGSAV-FRLDYKGQSACLAQ-- 300
               ++ +    R+F      +E+ TP +             V F   + G         
Sbjct: 35  NLLKRAAIMAEIRRFFADRGVLEVETPCMSQATVT---DIHLVPFETRFVGPGHSQGMNL 91

Query: 301 ----SPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KKHYSE 353
               SP+ H +  +    G VF+    FR E+     H  EFT     +E          
Sbjct: 92  WLMTSPEYHMKRLLVAGCGPVFQLCRSFRNEEMGR-YHNPEFT----MLEWYRPHYDMYR 146

Query: 354 VMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLT--------FEEGVQ 405
           +M+ VD L                + V      E L Y+   LR            +  +
Sbjct: 147 LMNEVDDLL---------------QQVLDCPAAESLSYQQAFLRYLEIDPLSADKTQLRE 191

Query: 406 MLKDAGVEIDPLGDLNTESERKLGQLVLE 434
           +     +          ++E     L+  
Sbjct: 192 VAAKLDLSNVA------DTEEDRDTLLQL 214

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.8 bits (136), Expect = 1e-08
 Identities = 48/333 (14%), Positives = 95/333 (28%), Gaps = 101/333 (30%)

Query: 153 FVRSLSNESIVDVI-GVVSVPDV-EIKGATQQVEVQIKKLYCVSRAAKTPIT---IEDAS 207
           FV +   + + D+   ++S  ++  I  +   V     +L+    + +  +    +E+  
Sbjct: 29  FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS-GTLRLFWTLLSKQEEMVQKFVEEVL 87

Query: 208 RSEAE--IEKASKEGVQLPRVNQDT------RLNNRVIDIRTLANQGIFRIQSQVGNIFR 259
           R   +  +     E  Q P +          RL N   D +  A   + R+Q     + R
Sbjct: 88  RINYKFLMSPIKTEQRQ-PSMMTRMYIEQRDRLYN---DNQVFAKYNVSRLQ-PYLKL-R 141

Query: 260 QFLL---SENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLA----QSPQLHKQMSICG 312
           Q LL       V I       G    GS        G++  +A     S ++  +M    
Sbjct: 142 QALLELRPAKNVLID------GV--LGS--------GKT-WVALDVCLSYKVQCKMD-FK 183

Query: 313 ----DFGRVFETGPVF----------------RAEDSYTHRHLCEFTGLDVEMEIK---- 348
               +         V                 R++ S   +         ++ E++    
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH----SIQAELRRLLK 239

Query: 349 -KHYSEVMDIVD--------------C--LFVT----IFDSLNNVCKKELEAVAKQYPFE 387
            K Y   + ++               C  L  T    + D L+      +          
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299

Query: 388 PLKYKPKTLRL---TFEEGVQMLKDAGVEIDPL 417
           P     +   L     +   Q L    +  +P 
Sbjct: 300 P----DEVKSLLLKYLDCRPQDLPREVLTTNPR 328

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 43.3 bits (101), Expect = 2e-04
 Identities = 39/282 (13%), Positives = 87/282 (30%), Gaps = 61/282 (21%)

Query: 97  ALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRS 156
            L+   +D    +   V TT P    +    +R+ ++T      V  D ++  +   +  
Sbjct: 310 YLDCRPQD----LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365

Query: 157 LSNESIVDVIGVVSV--PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIE 214
           L       +   +SV  P   I      +   +  ++         + + +     + +E
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHI---PTIL---LSLIWFDV-IKSDVMVVVNKLHKYSLVE 418

Query: 215 KASKE------GVQL---PRVNQDTRLNNRVID----IRTLANQGIFRI----------- 250
           K  KE       + L    ++  +  L+  ++D     +T  +  +              
Sbjct: 419 KQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478

Query: 251 -------QSQVGNIFRQFLLSENFVE---IHTPKLIAGSSEGGSAVFRLD-YKGQSACLA 299
                    +   +FR   L   F+E    H       S    + + +L  YK       
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY--ICD 536

Query: 300 QSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
             P+  + ++   DF        + + E    +    ++T L
Sbjct: 537 NDPKYERLVNAILDF--------LPKIE---ENLICSKYTDL 567

>3a74_A Lysyl-tRNA synthetase; aminoacyl tRNA synthetase, ligase, protein biosynthesis, AMI tRNA synthetase, ATP-binding, magnesium; HET: B4P LYN; 1.80A {Geobacillus stearothermophilus} PDB: 3e9h_A* 3e9i_A* Length = 493

 Score = 50.2 bits (121), Expect = 9e-07
 Identities = 80/365 (21%), Positives = 140/365 (38%), Gaps = 100/365 (27%)

Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
           +  EV + GR+ T R +G K  F  +++    +Q    V+ D V ++     +      +
Sbjct: 55  QQIEVAVAGRIMTKRGMG-KAGFAHIQDVTGQIQIY--VRQDDVGEQQYELFKISD---L 108

Query: 163 VDVIGVVSVPDVEIKGA---TQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKE 219
            D++GV        +G    T+  E+ IK    VS                   E  +K 
Sbjct: 109 GDIVGV--------RGTMFKTKVGELSIK----VS-----------------SYEFLTKA 139

Query: 220 GVQLPRV-----NQDTRLNNRVIDIRTLANQG---IFRIQSQVGNIFRQFLLSENFVEIH 271
              LP       + + R   R +D+  + N      F  +S +    R++L S  ++E+ 
Sbjct: 140 LRPLPEKYHGLKDIEQRYRQRYLDL--IMNPESKKTFITRSLIIQSMRRYLDSHGYLEVE 197

Query: 272 TPKL--IAGSSEGGSAVFR--------LD---YKGQSACLAQSPQLH-KQMSICGDFGRV 317
           TP +  +AG   G +A  R        LD   Y      +  + +LH K++ I G   +V
Sbjct: 198 TPMMHAVAG---GAAA--RPFITHHNALDMTLY------MRIAIELHLKRL-IVGGLEKV 245

Query: 318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KKHYSEVMDIVDCLFVTIFDSLNNVCK 374
           +E G VFR E   T RH  EFT     +E+      + ++M + + L   I   +     
Sbjct: 246 YEIGRVFRNEGIST-RHNPEFT----MLELYEAYADFRDIMKLTENLIAHIATEVLG--T 298

Query: 375 KELEAVAKQYPFEP-----------LKYKPKTLR--LTFEEGVQMLKDAGVEIDP---LG 418
            +++         P            +Y        ++ EE  ++ K+ GVE+ P    G
Sbjct: 299 TKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFG 358

Query: 419 DLNTE 423
            +  E
Sbjct: 359 HIVNE 363

>1e1o_A Lysyl-tRNA synthetase, heat inducible; ligase, aminoacyl-tRNA synthetase, protein biosynthesis; HET: LYS; 2.12A {Escherichia coli} SCOP: b.40.4.1 d.104.1.1 PDB: 1e1t_A* 1e22_A* 1e24_A* 1lyl_A 1bbu_A* 1bbw_A 1krs_A 1krt_A Length = 504

 Score = 48.3 bits (116), Expect = 3e-06
 Identities = 52/211 (24%), Positives = 88/211 (41%), Gaps = 53/211 (25%)

Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFR--------LD---YKG 293
            F ++S++    RQF+++  F+E+ TP +  I G   G SA  R        LD   Y  
Sbjct: 182 TFVVRSKILAAIRQFMVARGFMEVETPMMQVIPG---GASA--RPFITHHNALDLDMY-- 234

Query: 294 QSACLAQSPQLH-KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KK 349
               L  +P+L+ K++ + G F RVFE    FR E     RH  EFT     ME+     
Sbjct: 235 ----LRIAPELYLKRL-VVGGFERVFEINRNFRNEGISV-RHNPEFT----MMELYMAYA 284

Query: 350 HYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP-----------LKYKP---KT 395
            Y +++++ + LF T+   +      ++      + F              KY+P     
Sbjct: 285 DYHDLIELTESLFRTLAQEVLG--TTKVTYGEHVFDFGKPFEKLTMREAIKKYRPETDMA 342

Query: 396 LRLTFEEGVQMLKDAGVEIDP---LGDLNTE 423
               F+    + +  G+ ++    LG + TE
Sbjct: 343 DLDNFDAAKALAESIGITVEKSWGLGRIVTE 373

>4ex5_A Lysine--tRNA ligase; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: LYS; 2.40A {Burkholderia thailandensis} Length = 529

 Score = 46.4 bits (111), Expect = 1e-05
 Identities = 40/141 (28%), Positives = 58/141 (41%), Gaps = 34/141 (24%)

Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFR--------LD---YKG 293
            FR +++     R+F+   +F+E+ TP L  I G   G +A  +        LD   +  
Sbjct: 203 TFRARTKAIASIRKFMGDADFMEVETPMLHPIPG---GAAA--KPFVTHHNALDMEMF-- 255

Query: 294 QSACLAQSPQLH-KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KK 349
               L  +P+L+ K++ I G F RVFE    FR E     RH  EFT     ME      
Sbjct: 256 ----LRIAPELYLKRL-IVGGFERVFEINRNFRNEGVSP-RHNPEFT----MMEFYAAYT 305

Query: 350 HYSEVMDIVDCLFVTIFDSLN 370
            Y  +MD  + L         
Sbjct: 306 DYRWLMDFTERLIRQAAVDAL 326

>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B O-methyl tyrosine binding, magnesium binding, aminoacylatio esterification; HET: 0A1 ANP; 1.75A {Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A* 2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A* Length = 290

 Score = 42.6 bits (100), Expect = 1e-04
 Identities = 37/215 (17%), Positives = 69/215 (32%), Gaps = 29/215 (13%)

Query: 194 SRAAKTP-ITIEDASRSEAEIEKASKEGVQLPRVNQDTR---LNNRVIDIRTLANQGIFR 249
           S  A  P +T     R E  +    +  +   +  ++     L+ R  D++ +  +    
Sbjct: 18  SHGASAPALTKSQTDRLEVLLNPKDEISLNSGKPFRELESELLSRRKKDLQQIYAEEREN 77

Query: 250 IQSQVGNIFRQFLLSENFVEIHTPKLI------AGSSEGGSAVFRLDYKGQ--------- 294
              ++     +F +   F+EI +P LI          +  + + +  ++           
Sbjct: 78  YLGKLEREITRFFVDRGFLEIKSPILIPLEYIERMGIDNDTELSKQIFRVDKNFCLRPML 137

Query: 295 SACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE-MEIKKHYSE 353
           +  L     L K      D  ++FE GP +R E      HL EFT L    M        
Sbjct: 138 TPNLYNY--LRKLDRALPDPIKIFEIGPCYRKESD-GKEHLEEFTMLVFWQMGSGCTREN 194

Query: 354 VMDIVDCLF------VTIFDSLNNVCKKELEAVAK 382
           +  I+            I      V    L+ +  
Sbjct: 195 LESIITDFLNHLGIDFKIVGDSCMVFGDTLDVMHG 229

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	435
3i7f_A	548	Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-bi	100.0
1eov_A	487	ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA sy	100.0
3nem_A	438	Aspartyl-tRNA synthetase; rossmann fold, OB fold,	100.0
3bju_A	521	Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase,	100.0
3m4p_A	456	Ehasnrs, asparaginyl-tRNA synthetase, putative; am	100.0
4ex5_A	529	Lysine--tRNA ligase; structural genomics, niaid, n	100.0
1wyd_A	429	Hypothetical aspartyl-tRNA synthetase; archaea, LI	100.0
2xgt_A	435	Asparaginyl-tRNA synthetase, cytoplasmic; ligase,	100.0
1e1o_A	504	Lysyl-tRNA synthetase, heat inducible; ligase, ami	100.0
1x54_A	434	Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthe	100.0
3a74_A	493	Lysyl-tRNA synthetase; aminoacyl tRNA synthetase,	100.0
1n9w_A	422	Aspartyl-tRNA synthetase 2; biosynthetic protein;	100.0
1l0w_A	580	Aspartyl-tRNA synthetase; space-grown crystal, dim	100.0
1c0a_A	585	Aspartyl tRNA synthetase; protein-RNA complex, lig	100.0
4ah6_A	617	Aspartate--tRNA ligase, mitochondrial; 3.70A {Homo	100.0
3a5y_A	345	GENX, putative lysyl-tRNA synthetase; aminoacyl-tR	100.0
1nnh_A	294	Asparaginyl-tRNA synthetase-related peptide; struc	100.0
3qtc_A	290	Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthet	99.89
2rhq_A	294	Phenylalanyl-tRNA synthetase alpha chain; heterote	99.07
1b7y_A	350	Phers, protein (phenylalanyl-tRNA synthetase); enz	98.94
3dsq_A	288	Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-t	98.77
12as_A	330	Asparagine synthetase; ligase, nitrogen fixation;	98.72
1evl_A	401	Threonyl-tRNA synthetase; amino acid recognition,	98.22
1qe0_A	420	Histidyl-tRNA synthetase; class II tRNA synthetase	98.2
2dq3_A	425	Seryl-tRNA synthetase; coiled-coil, homodimer, str	98.2
3pco_A	327	Phenylalanyl-tRNA synthetase, alpha subunit; amino	98.17
2i4l_A	458	Proline-tRNA ligase; alpha beta; 2.00A {Rhodopseud	98.14
1z7m_A	344	ATP phosphoribosyltransferase regulatory subunit;	98.12
1wu7_A	434	Histidyl-tRNA synthetase; ligase, structural genom	98.07
1nyr_A	645	Threonyl-tRNA synthetase 1; ATP, threonine, ligase	98.05
1hc7_A	477	Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase,	98.01
1h4v_B	421	Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA	97.99
3od1_A	400	ATP phosphoribosyltransferase regulatory subunit;	97.94
4e51_A	467	Histidine--tRNA ligase; seattle structural genomic	97.94
1htt_A	423	Histidyl-tRNA synthetase; complex (tRNA synthetase	97.91
3vbb_A	522	Seryl-tRNA synthetase, cytoplasmic; coiled-coil, l	97.89
2j3l_A	572	Prolyl-tRNA synthetase; class II aminoacyl- T synt	97.89
1nj8_A	459	Proline-tRNA synthetase, proline--tRNA ligase; cla	97.88
1ses_A	421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	97.88
3uh0_A	460	Threonyl-tRNA synthetase, mitochondrial; threonine	97.88
3net_A	465	Histidyl-tRNA synthetase; aminoacyl-tRNA synthetas	97.88
2dq0_A	455	Seryl-tRNA synthetase; coiled-coil, homodimer, str	97.87
3rac_A	373	Histidine-tRNA ligase; structural genomics, PSI-bi	97.84
1qf6_A	642	THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, m	97.83
3lc0_A	456	Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-t	97.82
3err_A	536	Fusion protein of microtubule binding domain from	97.8
1nj1_A	501	PROR, proline-tRNA synthetase, proline--tRNA ligas	97.79
3l4g_A	508	Phenylalanyl-tRNA synthetase alpha chain; aminoacy	97.76
3lss_A	484	Seryl-tRNA synthetase; aminoacyl-tRNA synthetase,	97.75
3a32_A	471	Probable threonyl-tRNA synthetase 1; aeropyrum per	97.69
1wle_A	501	Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bo	97.67
3qne_A	485	Seryl-tRNA synthetase, cytoplasmic; amino acid bio	97.67
3ial_A	518	Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase,	97.63
2cja_A	522	Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE	97.61
4g84_A	464	Histidine--tRNA ligase, cytoplasmic; synthetase; 2	97.58
4g85_A	517	Histidine-tRNA ligase, cytoplasmic; synthetase; 3.	97.56
1usy_A	275	ATP phosphoribosyltransferase regulatory subunit;	97.55
4hvc_A	519	Bifunctional glutamate/proline--tRNA ligase; ligas	97.53
3mf2_A	346	BLL0957 protein; aminoacyl-tRNA synthetase, seryl-	97.18
1ati_A	505	Glycyl-tRNA synthetase; protein biosynthesis, liga	97.08
2du7_A	549	O-phosphoseryl-tRNA synthetase; alpha4 tetramer, l	96.94
3cmq_A	415	Phenylalanyl-tRNA synthetase, mitochondrial; class	96.89
2du3_A	534	O-phosphoseryl-tRNA synthetase; alpha4 tetramer, l	96.8
2zt5_A	693	Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP	96.71
2k50_A	115	Replication factor A related protein; uncharacteri	96.6
3ikl_A	459	DNA polymerase subunit gamma-2, mitochondrial; tra	96.55
3kf6_A	159	Protein STN1; OB fold, chromosomal protein, DNA-bi	96.53
2odr_B	648	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	96.51
2odr_A	665	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	96.48
2odr_D	685	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	96.46
2odr_C	701	Phosphoseryl-tRNA synthetase; phosphoserine tRNA s	96.36
1ynx_A	114	Replication factor-A protein 1; canonical OB fold,	96.35
1g5h_A	454	Mitochondrial DNA polymerase accessory subunit; in	96.19
3dm3_A	105	Replication factor A; probably plays AN essential	96.11
3kdf_D	132	Replication protein A 32 kDa subunit; wheat GERM c	95.6
3e0e_A	97	Replication protein A; structural genomics, PSI-2,	95.49
1nnx_A	109	Protein YGIW; structural genomics, hypothetical pr	95.39
3au7_A	402	TIAS, putative uncharacterized protein; ATP hydrol	95.29
3ig2_A	213	Phenylalanyl-tRNA synthetase beta chain; phers, MC	95.0
3l4g_B	589	Phenylalanyl-tRNA synthetase beta chain; aminoacyl	94.98
4gop_B	136	Putative uncharacterized protein; OB fold, ssDNA b	94.84
2rhq_B	795	Phenylalanyl-tRNA synthetase beta chain; heterotet	94.79
1o7i_A	119	SSB, SSO2364, single stranded DNA binding protein;	93.7
3ica_A	213	Phenylalanyl-tRNA synthetase beta chain; APC61692.	93.57
1jmc_A	246	Protein (replication protein A (RPA)); human ssDNA	93.32
2kbn_A	109	Conserved protein; nucleic acid binding protein, b	92.18
2pi2_A	270	Replication protein A 32 kDa subunit; FULL-length	90.99
3kdf_A	121	Replication protein A 14 kDa subunit; wheat GERM c	90.87
1txy_A	104	Primosomal replication protein N; OB fold, dimer,	90.27
3kf8_A	220	Protein STN1; OB fold; 2.40A {Candida tropicalis m	90.14
2hpi_A	1220	DNA polymerase III alpha subunit; POL-beta-like nu	89.64
2k75_A	106	Uncharacterized protein TA0387; closed beta barrel	89.31
4gop_C	444	Putative uncharacterized protein; OB fold, ssDNA b	89.12
3fhw_A	115	Primosomal replication protein N; PRIB BPR162 X-RA	88.27
1b7y_B	785	Phers, protein (phenylalanyl-tRNA synthetase); enz	88.15
3tqy_A	158	Single-stranded DNA-binding protein; DNA replicati	84.9
2vw9_A	134	Single-stranded DNA binding protein; DNA replicati	84.49
4gop_A	114	Putative uncharacterized protein; OB fold, ssDNA b	84.0
3vdy_A	116	SSB, single-stranded DNA-binding protein SSBB; OB	83.83
2pi2_E	142	Replication protein A 14 kDa subunit; FULL-length	83.04

>3i7f_A Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-binding, aminoacyl-tRNA synthetase, LI nucleotide-binding, protein biosynthesis; 2.80A {Entamoeba histolytica}

Probab=100.00  E-value=9.2e-85  Score=687.83  Aligned_cols=368  Identities=43%  Similarity=0.690  Sum_probs=316.9

Q ss_pred             ccccCCCCCCccCCChhhhhccCCCCCCCccccccCcceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCe
Q 013856           54 IEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVS  133 (435)
Q Consensus        54 ~~~~d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~  133 (435)
                      .+++|.++++||++|++|+|..          ..++++|+.|++|.+.+.|++|+|+|||+++|.+| |++|++|||+++
T Consensus        22 ~~~~~~~~~~yg~~~~~~~~~~----------~~~~~~~~~i~~l~~~~~g~~V~v~Gwv~~~R~~g-kl~Fi~LrD~~g   90 (548)
T 3i7f_A           22 KTPELVSGENFKVMPMHQSQPC----------YKTGLKYTEIEELVPAMAEKTVTIRARVQAVRGKG-NMVFLFLRKGIY   90 (548)
T ss_dssp             BCCCCCCCSSEEECCCCSSCGG----------GCCCCCBCCGGGCSGGGTTCEEEEEEEEEEEEECS-SEEEEEEEETTE
T ss_pred             ccccchhhhhcCcCcccccccc----------ccCCCceEEhhhcchhcCCCEEEEEEEEEEEecCC-CeEEEEEEECCe
Confidence            4567899999999999987721          24678999999999889999999999999999999 999999999999


Q ss_pred             EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCc-eeEEEEEeEEEEeecC-CCCCcccccccchHH
Q 013856          134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVEVQIKKLYCVSRA-AKTPITIEDASRSEA  211 (435)
Q Consensus       134 ~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t-~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~  211 (435)
                      +||||++.+. .++++|++|++.|+.||+|.|+|+|.+++.++++++ |++||++++|+|||+| .+||++++|+++++.
T Consensus        91 ~iQ~v~~~~~-~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~~~~~El~~~~i~vls~a~~~lP~~~~d~~~~~~  169 (548)
T 3i7f_A           91 TCQALVMKSE-TISKEFVQFCQKISAESICDITGIVKAVEKPIEKATQQDVEIHVTSIAVVSLAEYPLPMQIEDLTFPSS  169 (548)
T ss_dssp             EEEEEEECSS-SSCHHHHHHHHTCCTTEEEEEEEEEEECSSCCTTSSSCSEEEEEEEEEEEECCCBSCSSCSGGGSCCHH
T ss_pred             eEEEEEECCC-ccCHHHHHHHhCCCCCCEEEEEEEEEeCCcccccCCCCcEEEEEeEEEEEecCCCCCCCCchhcccccc
Confidence            9999998643 368899999999999999999999998877777774 7899999999999999 999999999988765


Q ss_pred             HHHhh--------------------------------------hhcCCCCCCCCcccccccceeeeechhhhhHHHHHHH
Q 013856          212 EIEKA--------------------------------------SKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQ  253 (435)
Q Consensus       212 ~~~~~--------------------------------------~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~  253 (435)
                      +.++.                                      ......++.+++++||+|||||||++.++++|++||.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~e~rl~~R~LdLR~~~~~~~~r~Rs~  249 (548)
T 3i7f_A          170 VFKKQEEDIAKVDEKIAKFLKDNEGKDLTKRPLKDEYAKLLKEKASAQKYVKVSQDTRLDNRMLDLRTVTNIAIFRIQSA  249 (548)
T ss_dssp             HHHHHHHHTTCC-------------------------------CCCCCCCCCCCHHHHHTTHHHHTTSHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccCCHHHhhhchhhccCCHHHHHHHHHHHH
Confidence            53321                                      0011234568999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCc
Q 013856          254 VGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHR  333 (435)
Q Consensus       254 i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~r  333 (435)
                      |+++||+||.++||+||+||+|+++++|||+++|.++||+.++||+||||||||+||++|++|||+||||||||+++|+|
T Consensus       250 i~~~iR~ff~~~gF~EVeTPiL~~~~~egga~~F~v~~~~~~~yL~~Spql~~k~ll~~g~~rVfeI~~~FR~E~~~t~R  329 (548)
T 3i7f_A          250 CCGLFREFLTSQKFVEIHTPKLIGCSSEGGSNIFEVKYFDRKAYLAQSPQLYKQMAIMGDFRKVFEVGPVFRAENSNTRR  329 (548)
T ss_dssp             HHHHHHHHHHHTTCEECCCCSBC-------------------CCBCSCTHHHHHHHHTTTCCEEEEEEEECCCSCCCSSS
T ss_pred             HHHHHHHHHHhCCCEEEeCCEEecccCCCCcceeEEecCCCceEeccCHHHHHHHHHhcCcCcEEEEeeeEecCCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHcCCC
Q 013856          334 HLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVE  413 (435)
Q Consensus       334 Hl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g~~  413 (435)
                      ||||||||||||+|.++|+|+|+++|+||+++++.+.++|..+++.++..+|...+++ .||+||||.||+++|++.|++
T Consensus       330 Hl~EFtmlE~e~af~~d~~d~m~~~E~li~~i~~~~~~~~~~el~~~~~~~~~~~~~~-~pf~rit~~eai~~l~~~g~~  408 (548)
T 3i7f_A          330 HLTEFEGLDIEMEIVENYHECIDVMEKLFTFIFDEIPKRFPDELKVIRKQYPFEDLIY-RPFLRLTYKEAIEMLRASGET  408 (548)
T ss_dssp             CCSCEEEEEEEEECSSCTHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHSCCCCCCC-CSCEEEEHHHHHHHHHHTTCC
T ss_pred             cchhhhchhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhcCCcccccc-CCcceeEHHHHHHHHHHcCCC
Confidence            9999999999999986699999999999999999999999999998888888777776 899999999999999999999


Q ss_pred             CCCCCCCCcHHHHHHHHHHhc
Q 013856          414 IDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       414 ~~~~~dl~te~E~~L~~~vke  434 (435)
                      ++|++||++++|+.|+++|++
T Consensus       409 ~~~~~dl~~~~e~~l~~~i~~  429 (548)
T 3i7f_A          409 IGDYDDFTTPQEVKLGELIKA  429 (548)
T ss_dssp             CCTTCCCCHHHHHHHHHHHHH
T ss_pred             CCCccccchHHHHHHHHHHHH
Confidence            999999999999999999865

>1eov_A ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA synthetase, tRNA ligase, APO-enzyme, OB-fold,; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.1 d.104.1.1 PDB: 1asy_A* 1asz_A*

Probab=100.00  E-value=2.2e-76  Score=621.06  Aligned_cols=357  Identities=49%  Similarity=0.767  Sum_probs=318.0

Q ss_pred             CCCccCCChhhhh--ccCCCCCCCccccccCcceeEeccccCC-CCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEE
Q 013856           61 ANNYGDVPLQELQ--SVNDPQTGKWSEAVSGREWTEVGALNGS-LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQC  137 (435)
Q Consensus        61 ~~~Yg~~~~~~~~--~~~~pyp~~~~~~~~~~~~~~i~~l~~~-~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQv  137 (435)
                      +++||++|+.|++  .            .+.++++.|+++... +.|++|+|+|||+++|.+|+.|+|++|||+++.|||
T Consensus         2 ~~~yG~~~~~~s~~~~------------~~~~~~~~~~~l~~~~~~g~~V~v~GwV~~~R~~g~~l~Fi~LrD~~g~iQv   69 (487)
T 1eov_A            2 KDNYGKLPLIQSRDSD------------RTGQKRVKFVDLDEAKDSDKEVLFRARVHNTRQQGATLAFLTLRQQASLIQG   69 (487)
T ss_dssp             CSSEEECCCCCCCGGG------------CCCCCCCCGGGCCTTTTTTCEEEEEEEEEEEEECSSSEEEEEEEETTEEEEE
T ss_pred             Cccccccccccccccc------------ccccceeEHHHhcccccCCCEEEEEEEEEEeeccCCccEEEEEEECCccEEE
Confidence            5689999998775  3            245678889998776 889999999999999999954599999999999999


Q ss_pred             EEeeCCCC-CCHHHHHHHhcCCCCceEEEEEEEecCCccCCC-CceeEEEEEeEEEEeecC-CCCCcccccccchHHHHH
Q 013856          138 LATVKPDS-VSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG-ATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIE  214 (435)
Q Consensus       138 v~~~~~~~-~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~-~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~  214 (435)
                      |++.+... ++++++++++.|+.||+|.|+|+|..++.++++ .+|++||++++|.|||+| ++||++++++++++.+. 
T Consensus        70 v~~~~~~~~~~~~~~~~~~~l~~e~~V~V~G~v~~~~~~~~~~~~g~~El~~~~i~vl~~a~~~lP~~~~~~~~~~~~~-  148 (487)
T 1eov_A           70 LVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKSATVQNLEIHITKIYTISETPEALPILLEDASRSEAEA-  148 (487)
T ss_dssp             EEECCSSSSSCHHHHHHHTTCCTTCEEEEEEEEEECSSCCTTSSEEEEEEEEEEEEEEECCCSSCSSCHHHHTSCHHHH-
T ss_pred             EEeccccccccHHHHHHHhcCCCCCEEEEEEEEEeCCCCCcCCCCCcEEEEEEEEEEeecccccCCcchhhcccccccc-
Confidence            99864323 577889999999999999999999887654443 348899999999999999 89999988765432110 


Q ss_pred             hhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCC
Q 013856          215 KASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQ  294 (435)
Q Consensus       215 ~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~  294 (435)
                          ....++.+++|+||+|||||||++.++++|++||.|+++||+||.++||+||+||+|+++++++||++|.++|+|+
T Consensus       149 ----~~~~~~~~~~e~r~~~R~LdLr~~~~~~~~~~rs~i~~~ir~~~~~~gF~EV~TPil~~~~~~~ga~~f~~~~~~~  224 (487)
T 1eov_A          149 ----EAAGLPVVNLDTRLDYRVIDLRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKG  224 (487)
T ss_dssp             ----HHTTCCCCCHHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCSSSSSCCCEEEETTE
T ss_pred             ----cccccccCChhhhhhcceeecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEeCCEEEEecCCCCcccceeccCCc
Confidence                1123566899999999999999999999999999999999999999999999999999988999999999999999


Q ss_pred             ceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhH
Q 013856          295 SACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCK  374 (435)
Q Consensus       295 ~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~  374 (435)
                      ++||+||||||+|++|++|++|||+||||||||+++++||+||||||||||+|.++|+|+|+++|+||+++++.+.++|.
T Consensus       225 ~~~L~~Spql~~k~l~~~g~~rvy~ig~~FR~E~~~~~Rh~pEFt~le~e~af~~~~~dlm~l~E~ll~~l~~~v~~~~~  304 (487)
T 1eov_A          225 KAYLAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLSELFVFIFSELPKRFA  304 (487)
T ss_dssp             EEEECSCTHHHHHHHHHTTCCEEEEEEEEECCCCCCCTTCCSEEEEEEEEEECSSCTHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             cEEcccChHHHHHHHHhcCCCceEEEeccEecCCCCCCccchhhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHhhch
Confidence            99999999999999999999999999999999999999999999999999999866999999999999999999999999


Q ss_pred             HHHHHhhhcCCCccccCCC--CCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHhc
Q 013856          375 KELEAVAKQYPFEPLKYKP--KTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       375 ~~i~~~~~~~~~~~~~~~~--p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~vke  434 (435)
                      .+|..+...++...+++..  ||+||+|.||+++|++.|++++|++|+++++|+.||+++.+
T Consensus       305 ~~l~~~~~~~~~~~~~~~~~~~~~ri~~~ea~~~l~~~g~~~~~~~d~~~~~e~~l~~~~~~  366 (487)
T 1eov_A          305 HEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGDFEDLSTENEKFLGKLVRD  366 (487)
T ss_dssp             HHHHHHHHHSCCCCCCCCTTCCCEEEEHHHHHHHHHHTTCCCCTTCCCCHHHHHHHHHHHHH
T ss_pred             hHHHhhhhhcCCcceecccCCCeeEEEHHHHHHHHHHhCCCCCcccchhhHHHHHHHHHHHH
Confidence            9998888877777777766  99999999999999999999999999999999999998754

>3nem_A Aspartyl-tRNA synthetase; rossmann fold, OB fold, ligase; HET: AMO ATP; 1.89A {Thermococcus kodakarensis} PDB: 3nel_A* 3nen_A 1b8a_A*

Probab=100.00  E-value=2.3e-75  Score=605.50  Aligned_cols=314  Identities=33%  Similarity=0.518  Sum_probs=288.0

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|..++.|++|+|+|||+++|.+| |++|++|||+++.||||++.+  .++++++++++.|+.||+|.|+|+|..+
T Consensus         5 ~~~~~l~~~~~g~~V~v~Gwv~~~R~~g-~~~Fi~LrD~~g~iQ~v~~~~--~~~~~~~~~~~~l~~~~~V~V~G~v~~~   81 (438)
T 3nem_A            5 HYSSEITEELNGQKVKVAGWVWEVKDLG-GIKFLWIRDRDGIVQITAPKK--KVDPELFKLIPKLRSEDVVAVEGVVNFT   81 (438)
T ss_dssp             CCGGGCCGGGTTCEEEEEEEEEEEEEET-TEEEEEEEETTEEEEEEEETT--TSCHHHHHHGGGCCTTCEEEEEEEEEEC
T ss_pred             EEHHHcchhcCCCEEEEEEEEEEEecCC-CeEEEEEEECCeeEEEEEeCC--cCCHHHHHHHhcCCCCCEEEEEEEEEeC
Confidence            5678888778899999999999999999 899999999999999999864  3577889999999999999999999875


Q ss_pred             CccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHH
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ  251 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~r  251 (435)
                      +.    .+|++||++++|.|||+| .+||+++++.                 ...+.++|+++||||||++.++++|++|
T Consensus        82 ~~----~~~~~el~~~~i~vl~~~~~~lP~~~~~~-----------------~~~~~e~r~~~R~Ldlr~~~~~~~~~~R  140 (438)
T 3nem_A           82 PK----AKLGFEILPEKIVVLNRAETPLPLDPTGK-----------------VKAELDTRLDNRFMDLRRPEVMAIFKIR  140 (438)
T ss_dssp             TT----STTSEEEEEEEEEEEECBCSSCSSCTTSS-----------------SCCCHHHHHHTHHHHTTSHHHHHHHHHH
T ss_pred             CC----CCCcEEEEEEEEEEEecCCCCCCCCcccc-----------------ccCCHHHHhhchHHHhcCHHHHHHHHHH
Confidence            42    236899999999999999 8999986542                 1267899999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCC
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT  331 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t  331 (435)
                      |.|+++||+||.++||+||+||+|+++++|||++.|.++|||+++||+||||||||+++++|++|||+||||||||++++
T Consensus       141 s~i~~~iR~f~~~~gF~EVeTPiL~~~~~eg~~~~f~~~~~~~~~yL~~Spql~~q~l~~~g~~rvf~i~~~FR~E~~~t  220 (438)
T 3nem_A          141 SSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKYFEEDAFLAQSPQLYKQIMMASGLDRVYEIAPIFRAEEHNT  220 (438)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEESSCSSCSSSCCEEEETTEEEEECSCSHHHHHHGGGTTCCEEEEEEEEECCCSSCC
T ss_pred             HHHHHHHHHHHHHCCcEEEeCCEEecCCCCCCccceeEeeCCccEEEecChHHHHHHHHhcCCCceEEEcceEECCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHcC
Q 013856          332 HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAG  411 (435)
Q Consensus       332 ~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g  411 (435)
                      .|||||||||||||+|.++|+|+|+++|+||+++++.+.++|..+++.++..++    .+..||+||||.||+++|++.|
T Consensus       221 ~RH~pEFt~le~e~a~~~~~~d~m~~~E~li~~~~~~v~~~~~~~l~~~~~~l~----~~~~pf~rity~eai~~l~~~g  296 (438)
T 3nem_A          221 TRHLNEAWSIDSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILNFELE----EPKLPFPRVSYDKALEILGDLG  296 (438)
T ss_dssp             TTCCSEEEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHCHHHHHHTTCCCC----CCCSSCCEEEHHHHHHHHHHTT
T ss_pred             cccccceeeeeeeeccCccHHHHHHHHHHHHHHHHHHHHhhhhhhHhhcccccc----cCCCCceEEEHHHHHHHHHHcC
Confidence            999999999999999998799999999999999999999999888877665431    1346999999999999999999


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHhc
Q 013856          412 VEIDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       412 ~~~~~~~dl~te~E~~L~~~vke  434 (435)
                      ++++|++||++++|++|++++.+
T Consensus       297 ~~~~~~~dl~~~~e~~l~~~~~~  319 (438)
T 3nem_A          297 KEIPWGEDIDTEGERLLGKYMME  319 (438)
T ss_dssp             CCCCTTSCCCHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCcHHHHHHHHHhhh
Confidence            99999999999999999999864

>3bju_A Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP- binding, cytoplasm, ligase, nucleotide-binding, phosphoprotein, polymorphism; HET: LYS ATP; 2.31A {Homo sapiens}

Probab=100.00  E-value=2.5e-73  Score=601.57  Aligned_cols=328  Identities=21%  Similarity=0.300  Sum_probs=269.8

Q ss_pred             CCCCCCCccccccCccee-Eecccc--CCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHH-HH
Q 013856           76 NDPQTGKWSEAVSGREWT-EVGALN--GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE-MV  151 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~~~-~i~~l~--~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~-~~  151 (435)
                      .|||||+|+++++..++. .+.++.  +...|++|+|+|||+++|.+|+|++|++|||++++||||++.+.. .+++ +.
T Consensus        24 ~~pyp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~Grv~~~R~~gkk~~F~~LrD~sg~iQvv~~~~~~-~~~~~~~  102 (521)
T 3bju_A           24 EDPYPHKFHVDISLTDFIQKYSHLQPGDHLTDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNY-KSEEEFI  102 (521)
T ss_dssp             CCSSCSCCCCCSCHHHHHHHHTTCCTTCBCSSCCEEEEEEEEEEEESSSSEEEEEEEETTEEEEEEEEGGGS-SCHHHHH
T ss_pred             CCCCCCcCcCccchHHHHHHhhhhccccccCCcEEEEEEEEEEEecCCCCcEEEEEEECCEEEEEEEECCcc-CCHHHHH
Confidence            589999999998876542 333332  345688999999999999999899999999999999999986421 1343 33


Q ss_pred             HHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCccc
Q 013856          152 RFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDT  230 (435)
Q Consensus       152 ~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~  230 (435)
                      ++.+.|+.||+|.|+|+|.+++      +|++||++++|.|||+| .+||++..                   +..++++
T Consensus       103 ~~~~~l~~gd~V~V~G~v~~t~------~ge~ei~~~~i~~l~~~~~~lP~~~~-------------------~~~~~e~  157 (521)
T 3bju_A          103 HINNKLRRGDIIGVQGNPGKTK------KGELSIIPYEITLLSPCLHMLPHLHF-------------------GLKDKET  157 (521)
T ss_dssp             HHHHHCCTTCEEEEEEEEEECT------TCCEEEEEEEEEEEECCCSCCCCC-----------------------CCHHH
T ss_pred             HHHhcCCCCCEEEEEEEEEecC------CCCEEEEEeEEEEeecCCCCCCCccc-------------------cccChhh
Confidence            4567899999999999998753      47899999999999999 89998632                   2368899


Q ss_pred             ccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHh
Q 013856          231 RLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQ  307 (435)
Q Consensus       231 rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq  307 (435)
                      |+++|||||| ++.++++|++||.|+++||+||.++||+||+||+|+++++++++.+|.+  +|||+++||+||||||||
T Consensus       158 r~r~RyLdLr~~~~~~~~~r~Rs~i~~~iR~f~~~~gF~EVeTPiL~~~~gGa~a~~F~t~~~~~~~~~yL~~SpqL~lk  237 (521)
T 3bju_A          158 RYRQRYLDLILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPGGAVAKPFITYHNELDMNLYMRIAPELYHK  237 (521)
T ss_dssp             HHHCHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCCSSSCCCCEEEETTTTEEEEECSCSHHHHH
T ss_pred             hhhhhhhhHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCceeeccCCCccccceeeecccCCcceEeeCCHHHHHH
Confidence            9999999999 5999999999999999999999999999999999997644434679988  789999999999999999


Q ss_pred             hhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc
Q 013856          308 MSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE  387 (435)
Q Consensus       308 ~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~  387 (435)
                      +|++||++||||||||||||++++ |||||||||||||+|++ |+|+|+++|+||+++++.+.+.+...+...+...+..
T Consensus       238 ~liv~g~~rVyeig~~FR~E~~~t-rH~pEFtmlE~e~af~d-~~dlm~l~E~li~~v~~~v~~~~~~~~~~~~~d~~~~  315 (521)
T 3bju_A          238 MLVVGGIDRVYEIGRQFRNEGIDL-THNPEFTTCEFYMAYAD-YHDLMEITEKMVSGMVKHITGSYKVTYHPDGPEGQAY  315 (521)
T ss_dssp             HHHHTTCCEEEEEEEEECCSCCBT-TBCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHHHHHHSSSEEEECTTCTTSCCE
T ss_pred             HHHhcCcCceEEEEcceeCCCCCC-ccchhhhhhhhhhhcCC-HHHHHHHHHHHHHHHHHHHhCCceEEecccccccccc
Confidence            999999999999999999999866 99999999999999996 9999999999999999999876532211111111222


Q ss_pred             cccCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHH-HHHHHHHh
Q 013856          388 PLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESE-RKLGQLVL  433 (435)
Q Consensus       388 ~~~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E-~~L~~~vk  433 (435)
                      .+++..||+|+||.||++.+  .|+++++++||+++++ ..|.++.+
T Consensus       316 ~~d~~~pf~rit~~eai~~~--~g~~~~~~~~l~~~~~~~~l~~~~~  360 (521)
T 3bju_A          316 DVDFTPPFRRINMVEELEKA--LGMKLPETNLFETEETRKILDDICV  360 (521)
T ss_dssp             EEECCSSCEEEEHHHHHHHH--HTSCCCCGGGTTSHHHHHHHHHHHH
T ss_pred             eeccCCCcccccHHHHHHHH--hCCCCCccccCCcHHHHHHHHHHHH
Confidence            46677899999999999854  5788877788988653 44544443

>3m4p_A Ehasnrs, asparaginyl-tRNA synthetase, putative; aminoacyl-tRNA synthetase, tRNA ligase, AARS, translation, ATP-binding, nucleotide-binding; HET: 4AD; 2.83A {Entamoeba histolytica} PDB: 3m4q_A

Probab=100.00  E-value=1.8e-71  Score=578.98  Aligned_cols=316  Identities=22%  Similarity=0.355  Sum_probs=267.2

Q ss_pred             cCcceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEE
Q 013856           88 SGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIG  167 (435)
Q Consensus        88 ~~~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G  167 (435)
                      +..+++.|+++ ..+.|++|+|+|||+++|.+|++++|++|||+++.||||++.+.  +++ .. .+..|+.||+|.|+|
T Consensus        15 ~~~~~~~i~~~-~~~~g~~V~v~Gwv~~~R~~Gk~~~Fi~LrD~sg~iQvv~~~~~--~~~-~~-~~~~l~~g~~V~V~G   89 (456)
T 3m4p_A           15 ETPIVCNIRDA-AGLEGKLVTFKGWAYHIRKARKTLIFVELRDGSGYCQCVIFGKE--LCE-PE-KVKLLTRECSLEITG   89 (456)
T ss_dssp             -CCCCEECCST-TCCCSSEEEEEEEEEEEECCSSSEEEEEEECSSCEEEEEEESTT--TTC-HH-HHTTCCTTCEEEEEE
T ss_pred             CcceEEEhhhh-hhcCCCEEEEEEEEEEEecCCCceEEEEEEeCCccEEEEEeccc--chh-hH-HhhcCCCccEEEEEe
Confidence            34678899999 57889999999999999999978999999999999999998632  222 12 356899999999999


Q ss_pred             EEecCCccC---CCCc-eeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeech
Q 013856          168 VVSVPDVEI---KGAT-QQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTL  242 (435)
Q Consensus       168 ~v~~~~~~~---~~~t-~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~  242 (435)
                      +|..++...   +.++ |++||++++|.||++| .++|...                   ....+.|+|+++||||||++
T Consensus        90 ~v~~~~~~~~~~~~~t~g~~El~~~~i~vl~~a~~~~~~~~-------------------~~~~~~e~r~~~R~LdlR~~  150 (456)
T 3m4p_A           90 RLNAYAGKNHPPEIADILNLEMQVTEWKVIGESPIDLENII-------------------NKDSSIPQKMQNRHIVIRSE  150 (456)
T ss_dssp             EEECCCSSSCCCSCTTBCSSEEEEEEEEEEECCCGGGTTTS-------------------CTTCCHHHHHHTHHHHTTSH
T ss_pred             EEEecCCcccCcccCCCCcEEEEEeEEEEEecCCCCCcccc-------------------cccCCHHHHhhchHHhhhcH
Confidence            998654321   1223 8899999999999999 5554321                   12367899999999999999


Q ss_pred             hhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEec
Q 013856          243 ANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGP  322 (435)
Q Consensus       243 ~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp  322 (435)
                      .++++|++||.|+++||+||.++||+||+||+|+++++|||+++|.++|||+++||+||||||||++++ |++|||||||
T Consensus       151 ~~~~~lr~Rs~i~~~iR~ff~~~gF~EVeTPiL~~s~~eGg~~~f~~~~~~~~~~L~~SpqL~lq~l~~-g~~rVyeig~  229 (456)
T 3m4p_A          151 HTQQVLQLRSEIQWYFRKYYHDNHFTEIQPPTIVKTQCEGGSTLFKLQYFNEPAYLTQSSQLYLESVIA-SLGKSFCMLS  229 (456)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEC------CCCCEEEETTEEEEECSCCHHHHHTTHH-HHSSEEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCEEEeCCeeecCCCCCccccccccccCCCcccccCHHHHHHHHHh-ccCcEEEEEh
Confidence            999999999999999999999999999999999998999999999999999999999999999999886 6999999999


Q ss_pred             ceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHH
Q 013856          323 VFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEE  402 (435)
Q Consensus       323 ~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~e  402 (435)
                      |||||+++|.|||||||||||||+|++ |+|+|+++|+||+++++.+.++|...++.+...+.    ....||+||||.|
T Consensus       230 ~FR~E~~~t~rH~pEFtmlE~e~af~d-~~d~m~~~E~li~~~~~~v~~~~~~~~~~~~~~~~----~~~~pf~rity~e  304 (456)
T 3m4p_A          230 SYRAEQSRTVRHLAEYLHLEAELPFIS-FEDLLNHLEDLVCTVIDNVMAVHGDKIRKMNPHLK----LPTRPFKRMTYAD  304 (456)
T ss_dssp             EECCCSCCCSSCCSEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCC----CCCSSCEEEEHHH
T ss_pred             heecCCCCCCcchHHHHHhHHHHhcCC-HHHHHHHHHHHHHHHHHHHhhhhhhhHhhcCcccc----cCCCCCeEeeHHH
Confidence            999999999999999999999999997 99999999999999999999888776655433221    1246899999999


Q ss_pred             HHHHHHHcCCC-----CCCCCCCCcHHHHHHHHHHh
Q 013856          403 GVQMLKDAGVE-----IDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       403 ai~ll~~~g~~-----~~~~~dl~te~E~~L~~~vk  433 (435)
                      |+++|++.|++     ..|++||++++|++|++.++
T Consensus       305 Ai~~l~~~g~~~~~~~~~~g~~l~~~~e~~l~~~~~  340 (456)
T 3m4p_A          305 AIKYCNDHGILNKDKPFEYGEDISEKPERQMTDEIG  340 (456)
T ss_dssp             HHHHHHHHTCCSSSSCCCTTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCccccCcchHHHHHHHHHHHHHHHhC
Confidence            99999999864     35889999999999998764

>4ex5_A Lysine--tRNA ligase; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: LYS; 2.40A {Burkholderia thailandensis}

Probab=100.00  E-value=1.4e-70  Score=578.92  Aligned_cols=310  Identities=23%  Similarity=0.296  Sum_probs=256.2

Q ss_pred             CCCCccCCChhhhhc---cCCCCCCCccccccCccee-EeccccC---CCCCCEEEEEEEEeeeccCCCceEEEEEEeCC
Q 013856           60 LANNYGDVPLQELQS---VNDPQTGKWSEAVSGREWT-EVGALNG---SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERV  132 (435)
Q Consensus        60 ~~~~Yg~~~~~~~~~---~~~pyp~~~~~~~~~~~~~-~i~~l~~---~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~  132 (435)
                      +++.|-..|...++.   .++||||+|.++++..++. ...++..   ...|++|+|+|||+++|.+| |++|++|||++
T Consensus        35 ~~~~~~~~r~~k~~~l~~~g~~yp~~~~~t~~~~~~~~~~~~~~~~~~~~~g~~V~v~GwV~~~R~~G-k~~Fi~LrD~s  113 (529)
T 4ex5_A           35 DENQIVAERRDKLRALRDQGIAYPNDFQPTHHAADLQTAYADADKEALEAKSLEVAIAGRMMLKRVMG-KASFATVQDGS  113 (529)
T ss_dssp             -CHHHHHHHHHHHHHHHHTSCSSCCCCCCCCCHHHHHHHTTTCCHHHHHHHCCEEEEEEEEEEEEEET-TEEEEEEECSS
T ss_pred             ChHHHHHHHHHHHHHHHHcCCCCCCCCcCceEHHHHHHHhhccCccccccCCcEEEEEEEEEeeecCC-CeEEEEEEeCC
Confidence            344455555443332   2569999999987764432 2222221   12389999999999999999 89999999999


Q ss_pred             eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHH
Q 013856          133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEA  211 (435)
Q Consensus       133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~  211 (435)
                      +.||||++.+  .++++++++++.|+.||+|.|+|+|.++      .+|++||++++|.|||+| .+||+...+      
T Consensus       114 g~iQvv~~~~--~~~~~~~~~~~~l~~gd~V~V~G~v~~t------~~gelel~~~~i~vLs~a~~plP~k~~~------  179 (529)
T 4ex5_A          114 GQIQFFVTPA--DVGAETYDAFKKWDLGDIVAARGVLFRT------NKGELSVKCTQLRLLAKALRPLPDKFHG------  179 (529)
T ss_dssp             CEEEEEECHH--HHCHHHHHHHHTCCTTCEEEEEEEEEEC------TTSCEEEEEEEEEEEECCSSCCCC----------
T ss_pred             eeEEEEEECC--cCCHHHHHHHhcCCCCCEEEEEEEEEEc------CCCcEEEEEEEEEEEecCCCCCCccccC------
Confidence            9999999864  2466778888999999999999999864      247899999999999999 899986432      


Q ss_pred             HHHhhhhcCCCCCCCCcccccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCc--ceee
Q 013856          212 EIEKASKEGVQLPRVNQDTRLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGS--AVFR  288 (435)
Q Consensus       212 ~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga--~~F~  288 (435)
                                   ..++++|+++|||||| ++.++++|++||.|+++||+||+++||+||+||+|+++  +|||  .+|.
T Consensus       180 -------------l~d~e~r~r~RyLdLr~~~~~~~~fr~Rs~i~~~iR~ff~~~gFlEVeTPiL~~~--~gGA~a~pF~  244 (529)
T 4ex5_A          180 -------------LADQETRYRQRYVDLIVTPETRTTFRARTKAIASIRKFMGDADFMEVETPMLHPI--PGGAAAKPFV  244 (529)
T ss_dssp             ---------------CTTHHHHTHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESS--CCSSSSCCCE
T ss_pred             -------------CcChhhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeeecc--CCCCcccccc
Confidence                         3678999999999998 59999999999999999999999999999999999854  4554  6897


Q ss_pred             e--ccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHh
Q 013856          289 L--DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIF  366 (435)
Q Consensus       289 ~--~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~  366 (435)
                      +  ++|++++||+||||||||+|+++|++||||||||||||+++ .|||||||||||||+|++ |+|+|+++|+||++++
T Consensus       245 t~~n~~~~~~yL~~SpqLylk~L~v~G~~rVyeIg~~FR~E~~~-~rH~pEFtmlE~e~af~d-~~dlm~l~E~li~~v~  322 (529)
T 4ex5_A          245 THHNALDMEMFLRIAPELYLKRLIVGGFERVFEINRNFRNEGVS-PRHNPEFTMMEFYAAYTD-YRWLMDFTERLIRQAA  322 (529)
T ss_dssp             EEETTTTEEEEECSCSHHHHHHHHHTTCSEEEEEEEEECCSCCB-TTBCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHH
T ss_pred             cccccCCcceecccCHHHHHHHHHhcCCCcEEEeehheecCCCC-CCcccHhHhhhhhhhcCC-HHHHHHHHHHHHHHHH
Confidence            6  68999999999999999999999999999999999999984 799999999999999996 9999999999999999


Q ss_pred             HHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHH
Q 013856          367 DSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       367 ~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~  408 (435)
                      +.+.+.+.  +     .+....+++..||+||||.|||+.+.
T Consensus       323 ~~v~~~~~--~-----~~~~~~id~~~pf~Rity~eAi~~~~  357 (529)
T 4ex5_A          323 VDALGTAT--I-----QYQGRELDLAQPFHRLTITQAIQKYA  357 (529)
T ss_dssp             HHHHSCSE--E-----EETTEEEETTSCCEEEEHHHHHHHHC
T ss_pred             HHHhCcCc--e-----ecCceeeccCCCceEEEHHHHHHHHh
Confidence            99987542  1     12334567788999999999998654

>1wyd_A Hypothetical aspartyl-tRNA synthetase; archaea, LIGA; HET: EPE; 2.30A {Sulfolobus tokodaii}

Probab=100.00  E-value=5.6e-69  Score=556.94  Aligned_cols=309  Identities=32%  Similarity=0.529  Sum_probs=279.3

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|+++...+.|++|+|+|||+++|.+| +++|++|||+++.||||++.+.     +++++++.|+.||+|.|+|+|..+
T Consensus         5 ~~~~~l~~~~~~~~V~v~Gwv~~~R~~g-~~~F~~lrD~~g~iQ~v~~~~~-----~~~~~~~~l~~~~~v~v~G~v~~~   78 (429)
T 1wyd_A            5 HFIADVTPEYDGKEVIWAGWVHLLRDLG-GKKFIILRDKTGLGQVVVDKNS-----SAFGISQELTQESVIQVRGIVKAD   78 (429)
T ss_dssp             SCTTTCCGGGTTCEEEEEEEEEEEEEET-TEEEEEEEETTEEEEEEECTTS-----TTHHHHTTCCTTCEEEEEEEEEEC
T ss_pred             EEHHHhhHHhCCCEEEEEEEEEEEecCC-CeEEEEEEECCeeEEEEEeCCh-----HHHHHHHhCCCCCEEEEEEEEEec
Confidence            3467776678899999999999999999 8999999999999999997542     456778899999999999999876


Q ss_pred             CccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHH
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ  251 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~r  251 (435)
                      +.    .+|++||++++|.|||+| ++||++.++.                 ...+.|+|+++||||||++.++++|++|
T Consensus        79 ~~----~~~~~el~~~~~~vl~~~~~~~P~~~~~~-----------------~~~~~e~r~~~R~Ldlr~~~~~~~~~~r  137 (429)
T 1wyd_A           79 KR----APRGIELHAEEITLLSKAKAPLPLDVSGK-----------------VKADIDTRLRERVLDLRRQEMQAVIKIQ  137 (429)
T ss_dssp             SS----SGGGEEEEEEEEEEEECCCSSCSSCSSSC-----------------CCCCHHHHHHTHHHHHTSHHHHHHHHHH
T ss_pred             CC----CCccEEEEEeEEEEeccCCCCCCCCcccc-----------------ccCChhHhhhccceeccCHHHHHHHHHH
Confidence            42    357899999999999999 9999876531                 1267899999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCC
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT  331 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t  331 (435)
                      |.|++++|+||.++||+||+||+|+++++||++++|.++|+|+++||+||||||+|+ +++|++|||+||||||+|++++
T Consensus       138 s~i~~~ir~ff~~~gF~eV~TP~l~~~~~e~~~~~f~~~~~~~~~~L~~Spql~~~~-~~~g~~rvf~ig~~FR~E~~~~  216 (429)
T 1wyd_A          138 SLALKAFRETLYKEGFIEIFTPKIIASATEGGAQLFPVIYFGKEAFLAQSPQLYKEL-MAGVVERVFEVAPAWRAEESDT  216 (429)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEESSCSSTTCCCCEEEETTEEEEECSCCHHHHHH-HHHHHSEEEEEEEEECCCCCCS
T ss_pred             HHHHHHHHHHHhhCCCEEEECCEEEeeCCCCCceeEEEecCCceEEecCCcHHHHHH-HHhCcCceEEEcccccccCCcc
Confidence            999999999999999999999999999899999999999999999999999999998 7778999999999999999988


Q ss_pred             CccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHcC
Q 013856          332 HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAG  411 (435)
Q Consensus       332 ~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g  411 (435)
                      .||+|||||||+||+|.+ ++|+|+++|+|++++++.+.++|..+|+.++..++.    +..||+||||.||++++.+.|
T Consensus       217 ~RH~pEFtqle~e~~~~~-~~dlm~~~e~ll~~l~~~~~~~~~~~l~~~~~~~~~----l~~pf~rity~eA~~~~~~~g  291 (429)
T 1wyd_A          217 PFHLAEFISMDVEMAFAD-YNDVMQLLEKILHNIVKTIKEEGKEELKILNYEPPE----VKIPIKRLKYTEAIEILRSKG  291 (429)
T ss_dssp             SSCCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHHHHHHHHTHHHHHHHTCCCCC----CCSSCEEEEHHHHHHHHHHSS
T ss_pred             ccccceeeEeeeeecCCC-HHHHHHHHHHHHHHHHHHHhccchhhhhhccccccc----CCCCccEEEHHHHHHHHHhcC
Confidence            999999999999999997 999999999999999999999998888877654432    246999999999999999999


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHhc
Q 013856          412 VEIDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       412 ~~~~~~~dl~te~E~~L~~~vke  434 (435)
                      +++.|++||++++|+.|++.+.+
T Consensus       292 ~~~~~~~~l~~~~e~~l~~~~~~  314 (429)
T 1wyd_A          292 YNIKFGDDIGTPELRILNEELKE  314 (429)
T ss_dssp             CCCCTTSCCCHHHHHHHHHHHCC
T ss_pred             CCcccCcccCcHHHHHHHHHhcc
Confidence            98899999999999999998753

>2xgt_A Asparaginyl-tRNA synthetase, cytoplasmic; ligase, ATP-binding, protein biosynthesis; HET: NSS; 1.90A {Brugia malayi} PDB: 2xti_A*

Probab=100.00  E-value=1e-68  Score=556.39  Aligned_cols=307  Identities=24%  Similarity=0.392  Sum_probs=257.1

Q ss_pred             EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCC
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPD  173 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~  173 (435)
                      +|+++. .+.|++|+|+|||+++|.+|++++|++|||+++.||||++.+   .++ .++. ..|+.||+|.|+|+|..++
T Consensus         2 ~i~~~~-~~~~~~V~v~Gwv~~~R~~Gk~~~Fi~LrD~~g~iQvv~~~~---~~~-~~~~-~~l~~~~~v~v~G~v~~~~   75 (435)
T 2xgt_A            2 KIRDLV-KHRNERVCIKGWIHRMRRQGKSLMFFILRDGTGFLQVLLMDK---LCQ-TYDA-LTVNTECTVEIYGAIKEVP   75 (435)
T ss_dssp             CGGGGG-GGTTSEEEEEEEEEEEEECTTSEEEEEEECSSCEEEEEEEGG---GGS-SHHH-HHCCTTCEEEEEEEEEECC
T ss_pred             chhhhh-hcCCCEEEEEEEEEEecccCCCcEEEEEEECCceEEEEECCc---chh-HHHH-hcCCCCCEEEEEEEEEecC
Confidence            356664 578999999999999999987899999999999999999843   121 1222 3699999999999998753


Q ss_pred             ccCCCCceeEEEEEeEEEEeecC-CC--CCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHH
Q 013856          174 VEIKGATQQVEVQIKKLYCVSRA-AK--TPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI  250 (435)
Q Consensus       174 ~~~~~~t~~lEI~v~~i~vls~~-~~--lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~  250 (435)
                      .. ++.+|++||+++++.||+++ +.  .|+..+                    ..+.|+|+++||||||++.++++|++
T Consensus        76 ~~-~~~~g~~El~~~~~~vl~~~~p~~~~pl~~~--------------------~~~~e~r~~~R~Ldlr~~~~~~~~r~  134 (435)
T 2xgt_A           76 EG-KEAPNGHELIADFWKIIGNAPPGGIDNVLNE--------------------EASVDKMLDNRHLVIRGENAAALLRL  134 (435)
T ss_dssp             -------TTEEEEEEEEEEEECCCTTHHHHHCC----------------------CCHHHHHHTHHHHTTSHHHHHHHHH
T ss_pred             CC-cCCCCcEEEEEEEEEEeecCCCccccccccc--------------------CCCHHHHhhCeeeeecCHHHHHHHHH
Confidence            21 24468899999999999986 21  222211                    26889999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCC
Q 013856          251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY  330 (435)
Q Consensus       251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~  330 (435)
                      ||.|+++||+||.++||+||+||+|++++++||+++|.++|||+++||+||||||||++++ |++||||||||||||+++
T Consensus       135 Rs~i~~~iR~ff~~~gFlEVeTPiL~~s~~eG~~~~F~~~~~g~~~~L~~SpqLylq~l~~-g~~rvfeIg~~FR~E~~~  213 (435)
T 2xgt_A          135 RAAATRAMREHFYNAGYVEVAPPTLVQTQVEGGSTLFNLDYFGEQSFLTQSSQLYLETCIP-TLGDVFCIAQSYRAEKSR  213 (435)
T ss_dssp             HHHHHHHHHHHHHHTTCEECCCCSEESCCSSCTTSCCEEEETTEEEEECSCSHHHHHHHHH-HHCSEEEEEEEECCCSSC
T ss_pred             HHHHHHHHHHHHHHCCCEEEECCeEeeccCCCchhceeeccCCcccccCCChHHHHHHhhh-ccCceEEEecceecCCCC
Confidence            9999999999999999999999999998899999999999999999999999999999885 799999999999999999


Q ss_pred             CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHH--HHHHhhhcCCCccccCCCCCccccHHHHHHHHH
Q 013856          331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKK--ELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~--~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~  408 (435)
                      ++|||||||||||||+|++ |+|+|+++|+||+++++.+.+.+..  .++.+...+.    ....||+||||.||+++++
T Consensus       214 t~RH~~EFT~lE~e~af~d-~~d~m~~~E~li~~~~~~v~~~~~~~~~~~~~~~~~~----~~~~pf~rity~ea~~~~~  288 (435)
T 2xgt_A          214 TRRHLAEYAHVEAECPFIT-LDDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQ----PPERPFLRMEYKDAIKWLQ  288 (435)
T ss_dssp             CTTCCSEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHHTSHHHHHHHHHHSTTCC----CCCSSCEEEEHHHHHHHHH
T ss_pred             ccccccceeEEEEEEecCC-HHHHHHHHHHHHHHHHHHHhccccchhhhhhcccccc----ccCCCceEEEHHHHHHHHH
Confidence            9999999999999999996 9999999999999999999876543  2333222111    1135899999999999999


Q ss_pred             HcCCC------CCCCCCCCcHHHHHHHHHHh
Q 013856          409 DAGVE------IDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       409 ~~g~~------~~~~~dl~te~E~~L~~~vk  433 (435)
                      ..|+.      +.+++|++++.|++|++.+.
T Consensus       289 ~~~~~~~~~~~~~~g~~l~~~~e~~l~~~~~  319 (435)
T 2xgt_A          289 EHNVENEFGNTFTYGEDIAEAAERFMTDTIN  319 (435)
T ss_dssp             HTTCBCTTSCBCCTTSCCCHHHHHHHHHHHT
T ss_pred             hcCCCcccccccchhhHHHHHHHHHHHHhcC
Confidence            88764      45778999999999988764

>1e1o_A Lysyl-tRNA synthetase, heat inducible; ligase, aminoacyl-tRNA synthetase, protein biosynthesis; HET: LYS; 2.12A {Escherichia coli} SCOP: b.40.4.1 d.104.1.1 PDB: 1e1t_A* 1e22_A* 1e24_A* 1lyl_A 1bbu_A* 1bbw_A 1krs_A 1krt_A

Probab=100.00  E-value=8.5e-69  Score=564.64  Aligned_cols=296  Identities=20%  Similarity=0.326  Sum_probs=246.7

Q ss_pred             CCCCCCCccccccCccee-EeccccC-C--CCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856           76 NDPQTGKWSEAVSGREWT-EVGALNG-S--LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV  151 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~~~-~i~~l~~-~--~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~  151 (435)
                      .|||||+|.++++..+.. ...++.. .  ..|++|+|+|||+++|.+| |++|++|||+++.||||++.+.  ++++++
T Consensus        32 ~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~Gwv~~~R~~g-k~~F~~LrD~sg~iQvv~~~~~--~~~~~~  108 (504)
T 1e1o_A           32 GVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMG-KASFVTLQDVGGRIQLYVARDS--LPEGVY  108 (504)
T ss_dssp             SCSSCCCCCCSCCHHHHHHHHTTCCHHHHHHHCCEEEEEEEEEEEEEET-TEEEEEEEETTEEEEEEEETTT--SSTTHH
T ss_pred             CCCCCCCCcCceEHHHHHHHhhccCccccccCCCEEEEEEEEEEEecCC-CcEEEEEEECCeeEEEEEECCc--CCHHHH
Confidence            489999999887654321 1222211 1  1288999999999999999 8999999999999999998542  445566


Q ss_pred             H-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcc
Q 013856          152 R-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQD  229 (435)
Q Consensus       152 ~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e  229 (435)
                      + .++.|+.||+|.|+|+|.+++      +|++||++++|.|||+| .+||....                   +.++.+
T Consensus       109 ~~~~~~l~~g~~V~V~G~v~~~~------~ge~ei~~~~i~vl~~a~~plP~k~~-------------------~~~~~e  163 (504)
T 1e1o_A          109 NDQFKKWDLGDIIGARGTLFKTQ------TGELSIHCTELRLLTKALRPLPDKFH-------------------GLQDQE  163 (504)
T ss_dssp             HHTGGGCCTTCEEEEEEEEEECT------TCCEEEEEEEEEEEECCSSCCCC--------------------------TT
T ss_pred             HHHHhcCCCCCEEEEEEEEEecC------CceEEEEEEEEEEecccCCCCCcccc-------------------CCcChh
Confidence            6 678999999999999998743      47899999999999999 89995421                   235789


Q ss_pred             cccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHH
Q 013856          230 TRLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHK  306 (435)
Q Consensus       230 ~rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~l  306 (435)
                      +|+++|||||| ++.++++|++||.|+++||+||.++||+||+||+|+++..++++.+|.|  ++||+++||+|||||||
T Consensus       164 ~r~r~RyLdL~~~~~~~~~~r~Rs~i~~~iR~f~~~~gFlEVeTPiL~~~~~Ga~ar~F~t~~~~~~~~~yL~~SpqLyl  243 (504)
T 1e1o_A          164 VRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYL  243 (504)
T ss_dssp             HHHHTHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHTTTCEECCCCSEESSCCSSCCCCCEEEETTTTEEEEECSCSHHHH
T ss_pred             hhhhccchhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeEEecCCCCcccceEeccCCCCceEEeccCHHHHH
Confidence            99999999996 7999999999999999999999999999999999996533334679998  78999999999999999


Q ss_pred             hhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCC
Q 013856          307 QMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPF  386 (435)
Q Consensus       307 q~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~  386 (435)
                      |+|++||++||||||||||||+++ .|||||||||||||+|++ |+|+|+++|+||+++++.+.++|.  |.     +..
T Consensus       244 k~L~v~G~~rVyeIg~~FR~E~~~-~rH~pEFt~lE~e~af~d-~~dlm~l~E~li~~~~~~v~~~~~--i~-----~~~  314 (504)
T 1e1o_A          244 KRLVVGGFERVFEINRNFRNEGIS-VRHNPEFTMMELYMAYAD-YHDLIELTESLFRTLAQEVLGTTK--VT-----YGE  314 (504)
T ss_dssp             HHHHHHTCCEEEEEEEEECCCCCC-C-CCSEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHHSSSE--EE-----ETT
T ss_pred             HHHhhcCCCcEEEEcccccCCCCC-ccccCceeeeeeeecCCC-HHHHHHHHHHHHHHHHHHHhCCce--ee-----eCC
Confidence            999999999999999999999985 499999999999999996 999999999999999999987763  21     222


Q ss_pred             ccccCCCCCccccHHHHHHHHH
Q 013856          387 EPLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       387 ~~~~~~~p~~rit~~eai~ll~  408 (435)
                      ..+++..||+||||.||++.+.
T Consensus       315 ~~i~~~~pf~rity~eAi~~~~  336 (504)
T 1e1o_A          315 HVFDFGKPFEKLTMREAIKKYR  336 (504)
T ss_dssp             EEEETTSCCEEEEHHHHHHHHS
T ss_pred             EeeccCCCceEEeHHHHHHHHc
Confidence            3456778999999999998654

>1x54_A Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken structural genomics/proteom initiative, RSGI, structural genomics, ligase; HET: 4AD; 1.45A {Pyrococcus horikoshii} PDB: 1x55_A* 1x56_A

Probab=100.00  E-value=3.8e-68  Score=551.74  Aligned_cols=310  Identities=28%  Similarity=0.416  Sum_probs=278.0

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|+++...+.|++|+|+|||+++|.+| |++|++|||+++.||||++.+  .++++++++++.|+.||+|.|+|+|..+
T Consensus         5 ~~~~~l~~~~~~~~V~v~G~v~~~R~~g-~~~F~~lrD~~g~iQ~v~~~~--~~~~~~~~~~~~l~~~~~v~v~G~v~~~   81 (434)
T 1x54_A            5 VYCQEVKPELDGKKVRLAGWVYTNMRVG-KKIFLWIRDSTGIVQAVVAKN--VVGEETFEKAKKLGRESSVIVEGIVKAD   81 (434)
T ss_dssp             CCGGGCCGGGTTCEEEEEEEEEEEEEET-TEEEEEEEETTEEEEEEECHH--HHCHHHHHHHHTCCTTCEEEEEEEEEEC
T ss_pred             EEHHHhhHHhCCCEEEEEEEEEEEecCC-CeEEEEEEECCEEEEEEEECC--cCCHHHHHHHhcCCCCCEEEEEEEEEec
Confidence            4567777678899999999999999999 899999999999999999753  2466788888999999999999999876


Q ss_pred             CccCCCCceeEEEEEeEEEEeecCCCCCc--ccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHH
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSRAAKTPI--TIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI  250 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~~~~lP~--~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~  250 (435)
                      +    +.+|++||++++|.|||+|++||+  +...                    .+.|+|+++||||||++.++++|++
T Consensus        82 ~----~~~~~~el~~~~~~vl~~~~~~P~~~~~~~--------------------~~~e~r~~~R~Ldlr~~~~~~~~~~  137 (434)
T 1x54_A           82 E----RAPGGAEVHVEKLEVIQAVSEFPIPENPEQ--------------------ASPELLLDYRHLHIRTPKASAIMKV  137 (434)
T ss_dssp             T----TSGGGEEEEEEEEEEEECCSCCSSCSSGGG--------------------SCHHHHHHTHHHHTTSHHHHHHHHH
T ss_pred             C----CCCccEEEEEeEEEEeecCCCCCCcccccC--------------------CCHHHhhhceeeeecCHHHHHHHHH
Confidence            4    234789999999999999988998  5332                    5789999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCC
Q 013856          251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY  330 (435)
Q Consensus       251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~  330 (435)
                      ||.|++.+|+||.++||+||+||+|+++.++|++++|.++|+|+++||+||||||+|+ +++|++|||+||||||+|+++
T Consensus       138 rs~i~~~ir~~f~~~gF~eVeTP~l~~~~~e~~~~~f~~~~~~~~~~Lr~Spel~~~~-~~~g~~rvf~ig~~FR~E~~~  216 (434)
T 1x54_A          138 KETLIMAAREWLLKDGWHEVFPPILVTGAVEGGATLFKLKYFDKYAYLSQSAQLYLEA-AIFGLEKVWSLTPSFRAEKSR  216 (434)
T ss_dssp             HHHHHHHHHHHHHHTTCEECCCCSEESCCSSCGGGCCEEEETTEEEEECSCSHHHHHH-HHHHHSEEEEEEEEECCCCCC
T ss_pred             HHHHHHHHHHHHHHCCCEEEeCcEEEeecCCCCceeEEEeecCCcEEeccChHHHHHH-HhcCccceEEEecceecCCCC
Confidence            9999999999999999999999999998899999999999999999999999999998 677899999999999999998


Q ss_pred             CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHc
Q 013856          331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDA  410 (435)
Q Consensus       331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~  410 (435)
                      +.||+|||||||+||+|.+ ++|+|+++|+|++++++.+.++|..+|+.++..++.-. .+..||+||||.||++++++.
T Consensus       217 ~~RH~pEFtqle~e~~~~~-~~dlm~~~e~ll~~l~~~v~~~~~~~i~~~~~~~~~~~-~~~~pf~rity~ea~~~~~~~  294 (434)
T 1x54_A          217 TRRHLTEFWHLELEAAWMD-LWDIMKVEEELVSYMVQRTLELRKKEIEMFRDDLTTLK-NTEPPFPRISYDEAIDILQSK  294 (434)
T ss_dssp             CSSCCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHHHHHHHHCHHHHHTTCSCCHHHH-TCCSSCCEEEHHHHHHHHHHT
T ss_pred             CcccccEEEEeeEEEcCCC-HHHHHHHHHHHHHHHHHHHhhhchhhhhhcCccccccc-ccCCCCcEEEHHHHHHHHHhc
Confidence            8999999999999999997 99999999999999999999988888876665433110 134699999999999999999


Q ss_pred             CCCCCCCCCCCcHHHHHHHHHH
Q 013856          411 GVEIDPLGDLNTESERKLGQLV  432 (435)
Q Consensus       411 g~~~~~~~dl~te~E~~L~~~v  432 (435)
                      |+++.|++||++++|++|++.+
T Consensus       295 g~~~~~~~dl~~~~e~~l~~~~  316 (434)
T 1x54_A          295 GVNVEWGDDLGADEERVLTEEF  316 (434)
T ss_dssp             TCCCCTTCCCCHHHHHHHHTTC
T ss_pred             CCCcccCCccChHHHHHHHHHh
Confidence            9988999999999999998754

>3a74_A Lysyl-tRNA synthetase; aminoacyl tRNA synthetase, ligase, protein biosynthesis, AMI tRNA synthetase, ATP-binding, magnesium; HET: B4P LYN; 1.80A {Geobacillus stearothermophilus} PDB: 3e9h_A* 3e9i_A*

Probab=100.00  E-value=8.2e-68  Score=556.18  Aligned_cols=296  Identities=21%  Similarity=0.319  Sum_probs=249.7

Q ss_pred             CCCCCCCccccccCccee-EeccccC---CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856           76 NDPQTGKWSEAVSGREWT-EVGALNG---SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV  151 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~~~-~i~~l~~---~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~  151 (435)
                      .|||||+|.++++..+.. ...++..   ...|++|+|+|||+++|.+| |++|++|||+++.||||++.+  .++++++
T Consensus        24 ~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~Gwv~~~R~~g-k~~F~~LrD~sg~iQvv~~~~--~~~~~~~  100 (493)
T 3a74_A           24 VDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMG-KAGFAHIQDVTGQIQIYVRQD--DVGEQQY  100 (493)
T ss_dssp             CCTTCCCCCCSCCHHHHHHHHTTSCHHHHHHHCCEEEEEEEEEEEEEET-TEEEEEEEETTEEEEEEEEHH--HHHHHHH
T ss_pred             CCCCCCCCcCceehHHHHHhhccccchhhccCCCEEEEEEEEEEEecCC-CcEEEEEEECCEeEEEEEECC--cCCHHHH
Confidence            589999999887654321 2222211   01288999999999999999 899999999999999999753  2345677


Q ss_pred             HHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCccc
Q 013856          152 RFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDT  230 (435)
Q Consensus       152 ~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~  230 (435)
                      +.++.|+.||+|.|+|+|.+++      +|++||++++|.|||+| .+||....                   +..+.++
T Consensus       101 ~~~~~l~~g~~v~V~G~v~~~~------~ge~ei~~~~i~vl~~~~~plP~k~~-------------------~~~~~e~  155 (493)
T 3a74_A          101 ELFKISDLGDIVGVRGTMFKTK------VGELSIKVSSYEFLTKALRPLPEKYH-------------------GLKDIEQ  155 (493)
T ss_dssp             HHHHHCCTTCEEEEEEEEEECT------TCCEEEEEEEEEEEECCSSCCCCC------------------------CHHH
T ss_pred             HHHhcCCCCCEEEEEEEEEeCC------CCcEEEEEEEEEEcccccCCCCcccc-------------------CCCCHhh
Confidence            7788999999999999998743      47899999999999999 99995421                   2367899


Q ss_pred             ccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHh
Q 013856          231 RLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQ  307 (435)
Q Consensus       231 rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq  307 (435)
                      |+++|||||| ++.++++|++||.|+++||+||.++||+||+||+|+++.+++++++|.+  ++||+++||+||||||||
T Consensus       156 r~r~RyldL~~~~~~~~~~r~Rs~i~~~iR~ff~~~gF~EVeTPiL~~~~~Ga~a~~F~~~~~~~~~~~yLr~SpqLylk  235 (493)
T 3a74_A          156 RYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLK  235 (493)
T ss_dssp             HHHTHHHHHHHCTHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCCSSSSCCCEEEETTTTEEEEECSCSHHHHH
T ss_pred             hhhcchhhhhcCHHHHHHHHHHHHHHHHHHHHHHhCCeEEEECCeEEecCCCCcccceEecccCCCceeEEecCHHHHHH
Confidence            9999999996 6999999999999999999999999999999999997644445679988  789999999999999999


Q ss_pred             hhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc
Q 013856          308 MSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE  387 (435)
Q Consensus       308 ~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~  387 (435)
                      ++++||++|||+||||||||++++ |||||||||||||+|++ |+|+|+++|+||+++++.+.++|.  +.     +...
T Consensus       236 ~l~v~G~~rVyeig~~FR~E~~~~-rH~pEFT~lE~e~af~d-~~dlm~l~E~ll~~l~~~v~~~~~--i~-----~~~~  306 (493)
T 3a74_A          236 RLIVGGLEKVYEIGRVFRNEGIST-RHNPEFTMLELYEAYAD-FRDIMKLTENLIAHIATEVLGTTK--IQ-----YGEH  306 (493)
T ss_dssp             HHHHTTCCEEEEEEEEECCCCCBT-TBCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHHHHHHSCSE--EE-----ETTE
T ss_pred             HHhhcccCceEEECccccCCCCCc-ccCCceeEEEEEecCCC-HHHHHHHHHHHHHHHHHHHhCCce--Ee-----eCCE
Confidence            999999999999999999999854 99999999999999997 999999999999999999987763  21     2223


Q ss_pred             cccCCCCCccccHHHHHHHHH
Q 013856          388 PLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       388 ~~~~~~p~~rit~~eai~ll~  408 (435)
                      .+++..||+||||.||++.+.
T Consensus       307 ~i~~~~pf~rity~eai~~~~  327 (493)
T 3a74_A          307 LVDLTPEWRRLHMVDAIKEYV  327 (493)
T ss_dssp             EEECCSSCEEEEHHHHHHHHT
T ss_pred             eeccCCCcceeeHHHHHHHHh
Confidence            456778999999999998553

>1n9w_A Aspartyl-tRNA synthetase 2; biosynthetic protein; 2.30A {Thermus thermophilus} SCOP: b.40.4.1 d.104.1.1 PDB: 3kfu_A*

Probab=100.00  E-value=1.6e-67  Score=545.09  Aligned_cols=301  Identities=34%  Similarity=0.481  Sum_probs=220.6

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCC-CCceEEEEEEEe
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLS-NESIVDVIGVVS  170 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~-~esiV~V~G~v~  170 (435)
                      ++.|+++. ++.|++|+|+|||+++|.+| |++|++|||+++.||||++.             +.|+ .||+|.|+|+|.
T Consensus         2 ~~~~~~l~-~~~~~~V~v~Gwv~~~R~~g-~~~F~~lrD~~g~iQ~v~~~-------------~~l~~~~~~v~v~G~v~   66 (422)
T 1n9w_A            2 RVLVRDLK-AHVGQEVELLGFLHWRRDLG-RIQFLLLRDRSGVVQVVTGG-------------LKLPLPESALRVRGLVV   66 (422)
T ss_dssp             BCCGGGGG-GCTTSEEEEEEEEEEEEECS-SEEEEEEEETTEEEEEEEES-------------CCCCCTTCEEEEEEEEE
T ss_pred             eEEHHHHH-hcCCCEEEEEEEEEEEecCC-CeEEEEEEECCEEEEEEEEc-------------cccCCCCCEEEEEEEEE
Confidence            34567777 68899999999999999999 89999999999999999974             4689 999999999998


Q ss_pred             cCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          171 VPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       171 ~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      .++.    .+|++||++++|.|||+| .+||++..+.                .+..+.|+|+++||||||++.++++|+
T Consensus        67 ~~~~----~~~~~el~~~~~~vl~~~~~~~P~~~~~~----------------~~~~~~e~r~~~R~Ldlr~~~~~~~~~  126 (422)
T 1n9w_A           67 ENAK----APGGLEVQAKEVEVLSPALEPTPVEIPKE----------------EWRANPDTLLEYRYVTLRGEKARAPLK  126 (422)
T ss_dssp             ECTT----STTSEEEEEEEEEEEECCCSCCC---------------------------------CHHHHTTSHHHHHHHH
T ss_pred             ecCC----CCccEEEEEeEEEEeccCCcCCCCCcccc----------------ccCCCHHHHhhhhHHhhcCHHHHHHHH
Confidence            7642    247899999999999999 9999876531                123678999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcC
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS  329 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s  329 (435)
                      +||.|++++|+||.++||+||+||+|++++++|++++|.++|+|+++||+||||||+|+++ +|++|||+||||||+|++
T Consensus       127 ~rs~i~~~ir~~f~~~gF~EV~TPil~~~~~e~~~~~f~~~~~g~~~~L~~Spel~~~~l~-~g~~rvf~ig~~FR~E~~  205 (422)
T 1n9w_A          127 VQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEGGSGLFGVDYFEKRAYLAQSPQLYKQIMV-GVFERVYEVAPVWRMEEH  205 (422)
T ss_dssp             HHHHHHHHHHHHHHHTTCEECCCC----------------------------CHHHHHHHH-HHHSEEEEEEEC------
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCEEEEeCCCCCceeEEEeeCCCcEEeeeCHHHHHHHHh-hCCCceeEEeCceECCCC
Confidence            9999999999999999999999999999889999999999999999999999999999987 779999999999999999


Q ss_pred             CCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHH
Q 013856          330 YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKD  409 (435)
Q Consensus       330 ~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~  409 (435)
                      ++.||+|||||||+||+|.++|+|+|+++|+|++++++.+.++|..+|+.++..++..    ..||+||||.||+++|++
T Consensus       206 ~~~RH~pEFtqle~e~~~~~d~~dlm~l~e~ll~~l~~~~~~~~~~~i~~~~~~~~~~----~~pf~rity~eA~~~~~~  281 (422)
T 1n9w_A          206 HTSRHLNEYLSLDVEMGFIADEEDLMRLEEALLAEMLEEALNTAGDEIRLLGATWPSF----PQDIPRLTHAEAKRILKE  281 (422)
T ss_dssp             -------CCEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHSHHHHHHTTCCCCCC----SSSCCEEEHHHHHHHHHH
T ss_pred             CCCcccceeEEeeeeeeCCCCHHHHHHHHHHHHHHHHHHHhccchhhhhhcCcccccc----CCCcceeEHHHHHHHHHh
Confidence            8899999999999999999449999999999999999999998988888776543321    168999999999999998


Q ss_pred             cCCCCCCCCCCCcHHHHHHHHHHh
Q 013856          410 AGVEIDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       410 ~g~~~~~~~dl~te~E~~L~~~vk  433 (435)
                      .| ++.|++|+++++|++|++.+.
T Consensus       282 ~~-~~~~~~dl~~~~e~~l~~~~~  304 (422)
T 1n9w_A          282 EL-GYPVGQDLSEEAERLLGEYAK  304 (422)
T ss_dssp             TS-CCCCCSSCCHHHHHHHHHHHH
T ss_pred             cC-CcccccccCcHHHHHHHHHHH
Confidence            88 778889999999999999885

>1l0w_A Aspartyl-tRNA synthetase; space-grown crystal, dimeric enzyme, flexible domains, ligase; 2.01A {Thermus thermophilus} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1efw_A* 1g51_A

Probab=100.00  E-value=3.4e-64  Score=537.41  Aligned_cols=278  Identities=28%  Similarity=0.414  Sum_probs=237.7

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|+++...+.|++|+|+|||+++|.+| +++|++|||+++.||||++.+.    + ++++++.|+.||+|.|+|+|..+
T Consensus         5 ~~~~~l~~~~~g~~V~l~GwV~~~R~~G-~~~Fi~LrD~~g~iQvv~~~~~----~-~~~~~~~l~~e~~V~V~G~v~~~   78 (580)
T 1l0w_A            5 HYAGSLRETHVGEEVVLEGWVNRRRDLG-GLIFLDLRDREGLVQLVAHPAS----P-AYATAERVRPEWVVRAKGLVRLR   78 (580)
T ss_dssp             SCGGGCCGGGTTCEEEEEEEEEEEEECS-SCEEEEEEETTEEEEEEECTTS----T-THHHHTTCCTTCEEEEEEEEEEC
T ss_pred             EEHHHhHHHhCCCEEEEEEEEEEEecCC-CeEEEEEEECCeeEEEEEeCCh----h-HHHHHhcCCCCcEEEEEEEEEcC
Confidence            4567787788899999999999999999 8999999999999999997532    2 57788899999999999999875


Q ss_pred             CccC-CCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHH
Q 013856          173 DVEI-KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ  251 (435)
Q Consensus       173 ~~~~-~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~r  251 (435)
                      +... +..+|++||++++|.|||+|.++|+.+.+..++           ...+.++.++||+|||||||++.++++|++|
T Consensus        79 ~~~~~~~~~ge~Ei~~~~i~vl~~a~~lP~~i~~~~~~-----------~~~~~~~~e~Rl~~RyLdLR~~~~~~~l~~R  147 (580)
T 1l0w_A           79 PEPNPRLATGRVEVELSALEVLAEAKTPPFPVDAGWRG-----------EEEKEASEELRLKYRYLDLRRRRMQENLRLR  147 (580)
T ss_dssp             SSCCTTSTTTTEEEEEEEEEEEECCCCCSSCCSSGGGT-----------CCCCCCCHHHHHHTHHHHTTSHHHHHHHHHH
T ss_pred             CCcCccCCCccEEEEEeEEEEeccCcCCCCCcchhccc-----------cccccCCHHHhhhhhHHHhcCHHHHHHHHHH
Confidence            4222 224688999999999999996678776553221           0123478999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeecc--CCCce-eeccChHHHHhhhccCCCceeEEEecceecCc
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSA-CLAQSPQLHKQMSICGDFGRVFETGPVFRAED  328 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~--~~~~~-~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~  328 (435)
                      |.|+++||+||.++||+||+||+|+++++|| |.+|.|.+  ++..+ ||+||||||||+||+||++||||||||||||+
T Consensus       148 s~i~~~iR~fl~~~gF~EVeTPiL~~s~~eG-Ar~F~v~~~~~~~~~y~L~qSPQl~kq~Lmv~G~~rvfqI~~~FR~E~  226 (580)
T 1l0w_A          148 HRVIKAIWDFLDREGFVQVETPFLTKSTPEG-ARDFLVPYRHEPGLFYALPQSPQLFKQMLMVAGLDRYFQIARCFRDED  226 (580)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSSBCCCSSS-SCCCEEECTTSTTEEEECCSCSHHHHHHHHHTTCSEEEEEEEEECCCC
T ss_pred             HHHHHHHHHHHHhCCcEEEeCCEEecCCCCC-CCCccccccccCCceeECccCHHHHHHHHHHhccCCeEEEeceeeCCC
Confidence            9999999999999999999999999877764 67798853  44444 59999999999999999999999999999999


Q ss_pred             CCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHH
Q 013856          329 SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQML  407 (435)
Q Consensus       329 s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll  407 (435)
                      +++.|| ||||||||||+|.+ |+|+|+++|+||+++++.+.+                 .++..||+||||.||++.+
T Consensus       227 ~~~~r~-pEFT~lE~e~af~d-~~dvm~~~E~li~~i~~~v~~-----------------~~~~~pf~rity~eA~~~~  286 (580)
T 1l0w_A          227 LRADRQ-PDFTQLDLEMSFVE-VEDVLELNERLMAHVFREALG-----------------VELPLPFPRLSYEEAMERY  286 (580)
T ss_dssp             CCSSCC-SEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHTC-----------------CCCCSSCCEEEHHHHHHHH
T ss_pred             CCCCcC-CCccceeeeecCCC-HHHHHHHHHHHHHHHHHHHhC-----------------CccCCCccEEEHHHHHHHh
Confidence            977655 59999999999997 999999999999999998753                 1234589999999999865

>1c0a_A Aspartyl tRNA synthetase; protein-RNA complex, ligase/RNA complex; HET: 4SU H2U QUO G7M 5MU PSU AMP AMO; 2.40A {Escherichia coli} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1il2_A* 1eqr_A*

Probab=100.00  E-value=9.2e-63  Score=527.55  Aligned_cols=270  Identities=27%  Similarity=0.409  Sum_probs=233.7

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.++++...+.|++|+|+|||+++|.+| +++|++|||+++.||||++.+    ..+++++++.|+.||+|.|+|+|..+
T Consensus         4 ~~~~~l~~~~~g~~V~l~GwV~~~R~~G-~~~Fi~LrD~~g~iQvv~~~~----~~~~~~~~~~l~~e~~V~V~G~v~~~   78 (585)
T 1c0a_A            4 EYCGQLRLSHVGQQVTLCGWVNRRRDLG-SLIFIDMRDREGIVQVFFDPD----RADALKLASELRNEFCIQVTGTVRAR   78 (585)
T ss_dssp             SCGGGCCGGGTTCEEEEEEEEEEEEECS-SCEEEEEEETTEEEEEEECGG----GHHHHHHHTTCCTTCEEEEEEEEEEC
T ss_pred             eEHHHHHHHhCCCEEEEEEEEEEEecCC-CcEEEEEEECCeeEEEEEeCC----chHHHHHHhcCCCCCEEEEEeEEEcc
Confidence            3567777778899999999999999999 899999999999999999753    25677888999999999999999875


Q ss_pred             Ccc---CCCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          173 DVE---IKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       173 ~~~---~~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      +..   .+..+|++||++++|.|||+|.++|+.+.+                   .++.++||+|||||||++.++++|+
T Consensus        79 ~~~~~n~~~~~geiEl~~~~i~vl~~a~~lP~~~~~-------------------~~~~e~Rl~~R~LdLR~~~~~~~l~  139 (585)
T 1c0a_A           79 DEKNINRDMATGEIEVLASSLTIINRADVLPLDSNH-------------------VNTEEARLKYRYLDLRRPEMAQRLK  139 (585)
T ss_dssp             CTTTCCTTSTTTTEEEEEEEEEEEECCCSCSSCTTS-------------------CCCHHHHHHTHHHHTTSHHHHHHHH
T ss_pred             CcccccccCCCccEEEEEeEEEEEeccCCCCCCccc-------------------cCCHhHhhhchHhhhcCHHHHHHHH
Confidence            432   122468899999999999999667876543                   2678999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeecc--C-CCceeeccChHHHHhhhccCCCceeEEEecceec
Q 013856          250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--K-GQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA  326 (435)
Q Consensus       250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~--~-~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~  326 (435)
                      +||.|+++||+||+++||+||+||+|+++++|| |.+|.|.+  + +..+||+||||||||+||+||++|||||||||||
T Consensus       140 ~Rs~i~~~iR~fl~~~gFlEVeTPiL~~s~~eG-Ar~F~v~~~~~~~~~y~L~qSPQl~kq~Lmv~G~~rvfqI~~~FR~  218 (585)
T 1c0a_A          140 TRAKITSLVRRFMDDHGFLDIETPMLTKATPEG-ARDYLVPSRVHKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFRD  218 (585)
T ss_dssp             HHHHHHHHHHHHHHHTTCEECCCCSSBCCCSSS-SCCCEEECSSSTTCEEECCSCSHHHHHHHHHTTCCEEEEEEEEECC
T ss_pred             HHHHHHHHHHHHHHhCCcEEEeCCEEecCCCCC-CccceecccccCCceEeCccCHHHHHHHHHhcCCCceEEEeceeec
Confidence            999999999999999999999999999877775 67798853  4 4445699999999999999999999999999999


Q ss_pred             CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHH
Q 013856          327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQM  406 (435)
Q Consensus       327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~l  406 (435)
                      |++++.|| ||||||||||+|++ |+|+|+++|+||+++++.+.+.                 ++.. |+||||.||++.
T Consensus       219 E~~~t~r~-pEFT~lE~e~af~d-~~dvm~~~E~li~~i~~~v~~~-----------------~~~~-f~r~ty~ea~~~  278 (585)
T 1c0a_A          219 EDLRADRQ-PEFTQIDVETSFMT-APQVREVMEALVRHLWLEVKGV-----------------DLGD-FPVMTFAEAERR  278 (585)
T ss_dssp             CCCBTTBC-SEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHHSC-----------------CCCS-CCEEEHHHHHHH
T ss_pred             CCCCCCcC-cccceeeeeecCCC-HHHHHHHHHHHHHHHHHHHhCC-----------------Cccc-cceeeHHHHHHH
Confidence            99977666 59999999999997 9999999999999999987532                 1123 899999999974


Q ss_pred             H
Q 013856          407 L  407 (435)
Q Consensus       407 l  407 (435)
                      +
T Consensus       279 ~  279 (585)
T 1c0a_A          279 Y  279 (585)
T ss_dssp             H
T ss_pred             h
Confidence            3

>4ah6_A Aspartate--tRNA ligase, mitochondrial; 3.70A {Homo sapiens}

Probab=100.00  E-value=4.6e-61  Score=513.26  Aligned_cols=274  Identities=26%  Similarity=0.374  Sum_probs=237.8

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|...+.|++|+|+|||+++|.+    +|++|||+++.||||++.+  ..+++++++++.|+.||+|.|+|+|...
T Consensus        13 ~~~~~l~~~~~g~~V~l~GwV~~~R~~----~Fi~LrD~~g~iQvv~~~~--~~~~~~~~~~~~l~~e~~V~V~G~v~~~   86 (617)
T 4ah6_A           13 NTCGELRSSHLGQEVTLCGWIQYRRQN----TFLVLRDFDGLVQVIIPQD--ESAASVKKILCEAPVESVVQVSGTVISR   86 (617)
T ss_dssp             SCGGGCCGGGTTCEEEEEEEECCCCTT----TEEEEECSSCEEEEECCCS--SSSHHHHHHHHHCCSSCEEEEEEEEEEC
T ss_pred             eEHHHhHHHhCCCEEEEEEEeeeecCe----EEEEEEeCCcCEEEEEeCC--cCcHHHHHHHhcCCCCCEEEEEEEEEeC
Confidence            567888888899999999999999963    5999999999999999854  2456788999999999999999999864


Q ss_pred             Cc---cCCCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856          173 DV---EIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR  249 (435)
Q Consensus       173 ~~---~~~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~  249 (435)
                      +.   ..+..+|++||++++|.||++|.+||+++++..                 .++.++||+|||||||++..+++|+
T Consensus        87 ~~~~~n~~~~tgeiEl~~~~i~vL~~a~~lP~~~~~~~-----------------~~~ee~Rl~~R~LdLR~~~~~~~lr  149 (617)
T 4ah6_A           87 PAGQENPKMPTGEIEIKVKTAELLNACKKLPFEIKNFV-----------------KKTEALRLQYRYLDLRSFQMQYNLR  149 (617)
T ss_dssp             STTCCCTTSTTTTEEEEEEEEEEEECBCCCSSCTTTTC-----------------CSCHHHHHHTHHHHTTSHHHHHHHH
T ss_pred             CccccCccCCCCcEEEEEeEEEEeecCCCCCccccccc-----------------ccChhhhccceeeeecchHHHHHHH
Confidence            32   123456899999999999999988999876542                 2578999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh-cCCeeeecCceeeecCCCCCcceeeecc--CCCceeeccChHHHHhhhccCCCceeEEEecceec
Q 013856          250 IQSQVGNIFRQFLL-SENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA  326 (435)
Q Consensus       250 ~rs~i~~~~R~fl~-~~gF~EV~TP~l~~~~~egga~~F~~~~--~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~  326 (435)
                      +||.|+++||+||. ++||+||+||+|+++ +.|||.+|.+.+  +|..+||+||||||||+||++|++|||||||||||
T Consensus       150 ~Rs~i~~~iR~f~~~~~gF~EVeTPiL~~s-t~~GA~~F~v~~~~~g~~~~L~qSpql~kq~l~v~g~~rvfqi~~~FR~  228 (617)
T 4ah6_A          150 LRSQMVMKMREYLCNLHGFVDIETPTLFKR-TPGGAKEFLVPSREPGKFYSLPQSPQQFKQLLMVGGLDRYFQVARCYRD  228 (617)
T ss_dssp             HHHHHHHHHHHHHHTTSCCEECCCCSSBCC-CCSSSCCCEEECSSTTCEEECCSSTTHHHHHHHHTSCSEEEEEEEEECC
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEeCCeeccC-CCCCCcCceeccccCCcccccccCHHHHHHHHHhcccCcEEEEEhheec
Confidence            99999999999996 799999999999975 456688899865  68999999999999999999999999999999999


Q ss_pred             CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHH
Q 013856          327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQM  406 (435)
Q Consensus       327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~l  406 (435)
                      |++++ +|+||||||||||+|.+ |+|+|+++|+||+++++.+.                  .++..||+||||.||+. 
T Consensus       229 E~~~t-~r~pEFt~lE~e~af~d-~~d~m~~~E~l~~~~~~~~~------------------~~~~~pf~r~ty~eA~~-  287 (617)
T 4ah6_A          229 EGSRP-DRQPEFTQIDIEMSFVD-QTGIQSLIEGLLQYSWPNDK------------------DPVVVPFPTMTFAEVLA-  287 (617)
T ss_dssp             CSSCS-SSCSEEEEEEEEEESCC-HHHHHHHHHHHHHHHSCSSS------------------CCCCSSCCEEEHHHHHH-
T ss_pred             ccCCC-CcCcceecceeeecCCC-HHHHHHHHHHHHHHHHHHhc------------------CccCCCceEeEHHHHHH-
Confidence            99855 56999999999999997 99999999999999986532                  13356899999999995 


Q ss_pred             HHHcCCC
Q 013856          407 LKDAGVE  413 (435)
Q Consensus       407 l~~~g~~  413 (435)
                        ..|.+
T Consensus       288 --~ygsD  292 (617)
T 4ah6_A          288 --TYGTD  292 (617)
T ss_dssp             --HTSSS
T ss_pred             --HHcCC
Confidence              55544

>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase paralog, translation, lysyl- synthetase, lysyladenylate analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A* 3g1z_A*

Probab=100.00  E-value=2.3e-42  Score=348.51  Aligned_cols=170  Identities=19%  Similarity=0.218  Sum_probs=139.7

Q ss_pred             eeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCC-CcceeeeccCC------CceeeccChHHHHhhhc
Q 013856          238 DIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG-GSAVFRLDYKG------QSACLAQSPQLHKQMSI  310 (435)
Q Consensus       238 dlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~eg-ga~~F~~~~~~------~~~~L~~Spql~lq~li  310 (435)
                      +.|++ ++++|++||.|+++||+||.++||+||+||+|++++++| ++.+|.++||+      .++||+||||||||+++
T Consensus        27 ~~~~~-~~~~lr~Rs~i~~~iR~ff~~~gF~EVeTPiL~~~~~~~a~~~~F~~~~~~~~~~~~~~~yL~~Spql~~k~l~  105 (345)
T 3a5y_A           27 WQPSA-SIPNLLKRAAIMAEIRRFFADRGVLEVETPCMSQATVTDIHLVPFETRFVGPGHSQGMNLWLMTSPEYHMKRLL  105 (345)
T ss_dssp             TSCSS-CHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSCCCCTTCCCCEEEECCSTTSCCEEEEECSCSHHHHHHHH
T ss_pred             cCCch-HHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEecCCCCCccceEEEEecCcccccCCCEeecCCHHHHHHHHH
Confidence            34555 889999999999999999999999999999999877654 67899999997      78999999999999999


Q ss_pred             cCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcccc
Q 013856          311 CGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLK  390 (435)
Q Consensus       311 ~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~  390 (435)
                      ++|++||||||||||||++ |.|||||||||||||+|.+ |+|+|+++|+||+++++.                      
T Consensus       106 ~~g~~rvyqIg~~FR~E~~-~~rH~pEFt~lE~e~af~d-~~d~m~~~E~li~~v~~~----------------------  161 (345)
T 3a5y_A          106 VAGCGPVFQLCRSFRNEEM-GRYHNPEFTMLEWYRPHYD-MYRLMNEVDDLLQQVLDC----------------------  161 (345)
T ss_dssp             HTTCCSEEEEEEEECCCCC-BTTBCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHHCC----------------------
T ss_pred             HcCCCcEEEEEcceeCCCC-cccccchhheeeeeeeCCC-HHHHHHHHHHHHHHHHcC----------------------
Confidence            9999999999999999998 9999999999999999997 999999999999999861                      


Q ss_pred             CCCCCccccHHHHHHH-----------------HHHcCCC-CCCC-CCCCcHHHHHHHHHHhc
Q 013856          391 YKPKTLRLTFEEGVQM-----------------LKDAGVE-IDPL-GDLNTESERKLGQLVLE  434 (435)
Q Consensus       391 ~~~p~~rit~~eai~l-----------------l~~~g~~-~~~~-~dl~te~E~~L~~~vke  434 (435)
                        .||+||||.||++.                 +++.|+. +.++ +|+++..|+.|+++|.+
T Consensus       162 --~~~~rity~ea~~~~~g~d~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~e~~l~~~ve~  222 (345)
T 3a5y_A          162 --PAAESLSYQQAFLRYLEIDPLSADKTQLREVAAKLDLSNVADTEEDRDTLLQLLFTFGVEP  222 (345)
T ss_dssp             --CCCEEEEHHHHHHHHTCCCTTCCC------------------------HHHHHHHHHHTGG
T ss_pred             --CCCcEeeHHHHHHHHhCCCCCCCCHHHHHHHHHHcCCcccCCCcCCHhHHHHHHHHHHHHH
Confidence              26788888888753                 3344555 5555 57888889999988754

>1nnh_A Asparaginyl-tRNA synthetase-related peptide; structural genomics, PSI, protein structure initiative, southeast COLL for structural genomics; 1.65A {Pyrococcus furiosus} SCOP: d.104.1.1 PDB: 3p8t_A 3p8v_A 3p8y_A 3reu_A* 3rex_A* 3rl6_A*

Probab=100.00  E-value=1.6e-37  Score=307.20  Aligned_cols=157  Identities=24%  Similarity=0.318  Sum_probs=142.5

Q ss_pred             ccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeec--------CCCCCcceeeeccCCCceeeccChHH
Q 013856          233 NNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAG--------SSEGGSAVFRLDYKGQSACLAQSPQL  304 (435)
Q Consensus       233 ~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~--------~~egga~~F~~~~~~~~~~L~~Spql  304 (435)
                      +||+||||++ ++++|++|+.|++.+|+||.++||+||+||+|..+        .+|| +++|.++|+|+++||++|||+
T Consensus         1 ~~r~l~lr~~-~~~~~~~rs~i~~~ir~~f~~~GF~EVeTP~l~~~~~~~~~~~~~e~-a~~f~~~~~~~~~~L~~Spe~   78 (294)
T 1nnh_A            1 MNAVEIISRE-ISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEG-MEPAEVEIYGVKMRLTHSMIL   78 (294)
T ss_dssp             -CHHHHHTSC-CHHHHHHHHHHHHHHHHHHHHTTCEEECCCCEESCCCCCCSCTTCCC-CCCCEEEETTEEEEECSCSHH
T ss_pred             CchHHhhhcc-hHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEEccchhccCCCCCc-ceeEEEEcCCCCEEeccChHH
Confidence            5899999999 99999999999999999999999999999999998        7777 899999999999999999999


Q ss_pred             HHhhhccCCCceeEEEecceecCc--CCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhh
Q 013856          305 HKQMSICGDFGRVFETGPVFRAED--SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAK  382 (435)
Q Consensus       305 ~lq~li~~g~~rVfeIgp~FR~E~--s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~  382 (435)
                      |+|+++++|++|||+||||||+|+  +++.||+|||||||+||+|.+ ++|+|+++|+|++++++.+.+.       ++.
T Consensus        79 ~~~~l~~~g~~rvf~ig~~FR~E~pq~~~~RH~~EFtqle~e~~~~~-~~~l~~~~e~l~~~l~~~~~~~-------~~~  150 (294)
T 1nnh_A           79 HKQLAIAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVERAK-MEDIMRLIERLVYGLFRKAEEW-------TGR  150 (294)
T ss_dssp             HHHHHHHTTCCEEEEEEEEECCCCGGGCSSSCCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHHHHHHHH-------HSS
T ss_pred             HHHHHhhcCccceEEEEccEeCCCCCCCCCccccceeEEEEEecCCC-HHHHHHHHHHHHHHHHHHHHhh-------hcc
Confidence            999999999999999999999999  877899999999999999997 9999999999999999987642       111


Q ss_pred             cCCCcccc-CCCCCccccHHHHHH
Q 013856          383 QYPFEPLK-YKPKTLRLTFEEGVQ  405 (435)
Q Consensus       383 ~~~~~~~~-~~~p~~rit~~eai~  405 (435)
                           .++ +. +|+|+||.||+.
T Consensus       151 -----~i~~~~-~~~r~~y~ea~~  168 (294)
T 1nnh_A          151 -----EFPKTK-RFEVFEYSEVLE  168 (294)
T ss_dssp             -----CCCCCS-SCEEEEHHHHHH
T ss_pred             -----ccccCC-CceEeEHHHHHH
Confidence                 122 23 399999999995

>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B O-methyl tyrosine binding, magnesium binding, aminoacylatio esterification; HET: 0A1 ANP; 1.75A {Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A* 2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A* 3vqv_A* 3vqw_A* 3vqx_A* 3vqy_A*

Probab=99.89  E-value=4.5e-25  Score=217.59  Aligned_cols=165  Identities=19%  Similarity=0.267  Sum_probs=131.1

Q ss_pred             CCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHH-----H
Q 013856          178 GATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI-----Q  251 (435)
Q Consensus       178 ~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~-----r  251 (435)
                      .++|++||++++|.+|++| .+||+++++.                      ..||++||||+|++..++++++     +
T Consensus        22 ~~~~~~ei~~~~~~vl~~a~~~~P~~~~~~----------------------~~~l~~r~l~~R~~~~~~i~~~g~~~~~   79 (290)
T 3qtc_A           22 SAPALTKSQTDRLEVLLNPKDEISLNSGKP----------------------FRELESELLSRRKKDLQQIYAEERENYL   79 (290)
T ss_dssp             --CCCCHHHHHHHHHHCCTTCC----CCSC----------------------HHHHHHHHHHHHHHHHHHHHHTTCCCHH
T ss_pred             CCCceEEEEhhhhhhhccCCCCCCCCcchh----------------------hhhhhhHHHHhccchHHHHhccccccHH
Confidence            4558899999999999999 8999976431                      2389999999999999999999     9


Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCC------CCcceee-eccCCCceeec--cChHHHHhhhc----cCCCceeE
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSE------GGSAVFR-LDYKGQSACLA--QSPQLHKQMSI----CGDFGRVF  318 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~e------gga~~F~-~~~~~~~~~L~--~Spql~lq~li----~~g~~rVf  318 (435)
                      +.+.+.+|++|..+||.||.||+|++..+.      ++...+. +.+|+..++||  +||+|+.++..    ..+..|+|
T Consensus        80 ~~i~~~ir~~l~~~Gf~EV~Tp~l~~~~~~~~~~~~~~~p~~~~~~~~~~~~~LR~slsp~L~~~l~~n~~~~~~p~rlf  159 (290)
T 3qtc_A           80 GKLEREITRFFVDRGFLEIKSPILIPLEYIERMGIDNDTELSKQIFRVDKNFCLRPMLTPNLYNYLRKLDRALPDPIKIF  159 (290)
T ss_dssp             HHHHHHHHHHHHHTTCEEECCCSEEETHHHHHTTCCTTSSGGGGCCEETTTEEECSCSHHHHHHHHHHHTTTSCSSEEEE
T ss_pred             HHHHHHHHHHHHHCCCEEEECCceeeHHHHHhcCCCcCCchhhhheeeCCCeeEcccChHHHHHHHHHhhccCCCCeEEE
Confidence            999999999999999999999999876421      1211222 44678899999  99999966543    25568999


Q ss_pred             EEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856          319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI  365 (435)
Q Consensus       319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i  365 (435)
                      |||+|||+|+. +.+|++||||+|+++++.+ ++.++..+++.++..+
T Consensus       160 eiG~vFR~E~~-~~~~~~Ef~ql~~~~~g~~~~f~elkg~le~ll~~l  206 (290)
T 3qtc_A          160 EIGPCYRKESD-GKEHLEEFTMLVFWQMGSGCTRENLESIITDFLNHL  206 (290)
T ss_dssp             EEEEEECCCSC-SSSCCSEEEEEEEEEESTTCCHHHHHHHHHHHHHHH
T ss_pred             EEcCEEecCCC-CCcCcchheEEEEEEEcCChHHHHHHHHHHHHHHHc
Confidence            99999999974 7899999999999998853 3677777777777654

>2rhq_A Phenylalanyl-tRNA synthetase alpha chain; heterotetramer, phenylalanine, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus haemolyticus} PDB: 2rhs_A*

Probab=99.07  E-value=3e-10  Score=111.96  Aligned_cols=113  Identities=11%  Similarity=0.127  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHhhcCCeeeecCceeeecC-----C-CCCc-------ceeeeccCCCceeeccChHHHHhhhccCC----
Q 013856          251 QSQVGNIFRQFLLSENFVEIHTPKLIAGS-----S-EGGS-------AVFRLDYKGQSACLAQSPQLHKQMSICGD----  313 (435)
Q Consensus       251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-----~-egga-------~~F~~~~~~~~~~L~~Spql~lq~li~~g----  313 (435)
                      .+.+.+.+|++|..+||.||++|.+.+..     . -+..       ++|.+   ....+||+|.-..+..+++.+    
T Consensus        55 ~~~~~~~iR~~l~~~Gf~Ev~~s~l~~~~~nf~~l~~~~~~par~~~d~~~l---~e~~vLRtsl~p~ll~~l~~N~~~~  131 (294)
T 2rhq_A           55 LTRTVEEIEDLFLGLGYEIVDGYEVEQDYYNFEALNLPKSHPARDMQDSFYI---TDEILMRTHTSPVQARTMEKRNGQG  131 (294)
T ss_dssp             HHHHHHHHHHHHHTTTCEECCCCSEEEHHHHTGGGTCCTTCGGGCTTTSCBS---SSSEEECSSSHHHHHHHHHHTTTCS
T ss_pred             HHHHHHHHHHHHHHCCCEEEcCcceeeehhhHHhhCCCCCccccccCCcEEE---cCcceeeccCHHHHHHHHHhcCCCC
Confidence            45678999999999999999999886531     0 0000       02322   355688888777777777766    


Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~  367 (435)
                      --|+||||+|||+++. +.+|+|||+||++++++. -++.+++..++.++..++.
T Consensus       132 ~~riFEiG~Vfr~d~~-d~~h~~Ef~~Le~~~~g~~~df~dlKg~le~ll~~l~g  185 (294)
T 2rhq_A          132 PVKIICPGKVYRRDSD-DATHSHQFTQIEGLVVDKNIKMSDLKGTLELVAKKLFG  185 (294)
T ss_dssp             CEEEEEEEEEECCCCC-BTTBCSEEEEEEEEEEESSCCHHHHHHHHHHHHHHHHC
T ss_pred             CccEEEEcCEEecCCC-CCCCCChhhEEEEEEECCCCCHHHHHHHHHHHHHHHhC
Confidence            6799999999998763 567999999999999983 1389999999999988753

>1b7y_A Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta homodimer, ligase; HET: FYA; 2.50A {Thermus thermophilus} SCOP: d.104.1.1 PDB: 1b70_A* 1eiy_A 1jjc_A* 1pys_A 2iy5_A* 3hfz_A* 3teh_A* 2aly_A* 2akw_A* 2amc_A*

Probab=98.94  E-value=1.9e-09  Score=108.51  Aligned_cols=114  Identities=15%  Similarity=0.106  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHHhhcCCeeeecCceeeecC-------CCC--C----cceeeecc-CC-----------Cceeec--cChH
Q 013856          251 QSQVGNIFRQFLLSENFVEIHTPKLIAGS-------SEG--G----SAVFRLDY-KG-----------QSACLA--QSPQ  303 (435)
Q Consensus       251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-------~eg--g----a~~F~~~~-~~-----------~~~~L~--~Spq  303 (435)
                      .+.+.+.||++|..+||.||.+|.+.+..       ...  .    .+.|.+.. ..           ....||  .||.
T Consensus       103 ~~~~~~~Ir~~f~~~Gf~Ev~~p~v~~~~~nfd~L~~p~~hpar~~~dt~~l~nP~s~~~~~~~~~~~~~~vLRt~tsp~  182 (350)
T 1b7y_A          103 ITLMERELVEIFRALGYQAVEGPEVESEFFNFDALNIPEHHPARDMWDTFWLTGEGFRLEGPLGEEVEGRLLLRTHTSPM  182 (350)
T ss_dssp             HHHHHHHHHHHHHTTTCEECCCCSEEEHHHHTTTTTCCSSSTTTTSSCCCBEECSSCCCBCTTSCBCCSCEEECSSSTHH
T ss_pred             HHHHHHHHHHHHHHCCCEEEECcchhcchhHHHhhCCCCCCccccccccEEEcCccccccccccccccccceeeccchHH
Confidence            35568899999999999999999996521       110  0    22454431 11           333455  5666


Q ss_pred             HHHhhhccCC-C-ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856          304 LHKQMSICGD-F-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       304 l~lq~li~~g-~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~  367 (435)
                      +.  .++..+ . -|+||||+|||++.. +.+|+|||+|||+++.+. -++.|++..++.++..++.
T Consensus       183 ll--r~l~~~~~piriFEiGrVFR~d~~-d~tH~pEF~qlegl~~g~~v~f~dLKg~le~ll~~lfG  246 (350)
T 1b7y_A          183 QV--RYMVAHTPPFRIVVPGRVFRFEQT-DATHEAVFHQLEGLVVGEGIAMAHLKGAIYELAQALFG  246 (350)
T ss_dssp             HH--HHHHHCCSSEEEEEEEEEECCCCC-CSSCCSEEEEEEEEEEETTCCHHHHHHHHHHHHHHHSC
T ss_pred             HH--HHHHhcCCCeeEEEeeeEEECCCC-CCCCCChhHEEEEEEECCCCCHHHHHHHHHHHHHhhcC
Confidence            65  344433 2 489999999999874 678999999999999886 1389999999999998865

>3dsq_A Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-tRNA synthetase, ligase; 2.10A {Desulfitobacterium hafniense} PDB: 2znj_A 2zni_A

Probab=98.77  E-value=5.6e-09  Score=102.58  Aligned_cols=112  Identities=23%  Similarity=0.370  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCC---CC-Cc--ceeee-ccCCCceeecc--ChHHHH--hhhccCCCc---ee
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG-GS--AVFRL-DYKGQSACLAQ--SPQLHK--QMSICGDFG---RV  317 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg-ga--~~F~~-~~~~~~~~L~~--Spql~l--q~li~~g~~---rV  317 (435)
                      ..+.+.+|++|...||.||.||.|.....   .| ..  +.|.+ ++.+..++||.  +|.+..  ... ...-+   |+
T Consensus        74 ~~l~~~ir~~~~~~Gf~EV~tP~Le~~~l~~~~g~~~~~~m~~~~npl~e~~~LRp~l~p~l~~~~r~~-~~~~~~Plrl  152 (288)
T 3dsq_A           74 LELEEKLAKALHQQGFVQVVTPTIITKSALAKMTIGEDHPLFSQVFWLDGKKCLRPMLAPNLYTLWREL-ERLWDKPIRI  152 (288)
T ss_dssp             HHHHHHHHHHHHTTTCEECCCCSEEEHHHHHTTSSCC--CCTTTSCEEETTEEECSCSHHHHHHHHHHH-TTTSCSCEEE
T ss_pred             HHHHHHHHHHHHHCCCEEEECCeeecHHHHhhcCCCcccccEEeecccccchhhhhcChHHHHHHHHHH-HhCCCCCEEE
Confidence            67899999999999999999999986431   11 11  12322 23456789984  566552  211 12233   99


Q ss_pred             EEEecceecCcCCCCccccchhhheeeecccc---cHHHHHHHHHHHHHHH
Q 013856          318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK---HYSEVMDIVDCLFVTI  365 (435)
Q Consensus       318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~---~~~d~m~~~e~l~~~i  365 (435)
                      |+||+|||+|.. +..|.+||+|+|+++....   ++.++..+++.++..+
T Consensus       153 feiG~vFR~E~~-~~~r~~EF~qle~~i~g~~~~~~f~elkg~le~ll~~L  202 (288)
T 3dsq_A          153 FEIGTCYRKESQ-GAQHLNEFTMLNLTELGTPLEERHQRLEDMARWVLEAA  202 (288)
T ss_dssp             EEEEEEECSCCS-SSCCCSEEEEEEEEEETCCGGGHHHHHHHHHHHHHHHH
T ss_pred             EEEeeEEecCCC-CCCcCccEEEEEEEEEcCCchhhHHHHHHHHHHHHHHc
Confidence            999999999986 6789999999999886641   2667777777777665

>12as_A Asparagine synthetase; ligase, nitrogen fixation; HET: AMP; 2.20A {Escherichia coli K12} SCOP: d.104.1.1 PDB: 11as_A*

Probab=98.72  E-value=8.4e-08  Score=94.05  Aligned_cols=154  Identities=11%  Similarity=0.168  Sum_probs=116.9

Q ss_pred             HHHHHHHHHHHHHHhh-----cCCeeeecCceeeecCCC-----CC-cceeeecc--C-CCceeeccChHHHHhhhccC-
Q 013856          248 FRIQSQVGNIFRQFLL-----SENFVEIHTPKLIAGSSE-----GG-SAVFRLDY--K-GQSACLAQSPQLHKQMSICG-  312 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~-----~~gF~EV~TP~l~~~~~e-----gg-a~~F~~~~--~-~~~~~L~~Spql~lq~li~~-  312 (435)
                      ++-....+.++++||.     +.||++|..|++....++     .| ..|..++.  + |..+-+.+|--.||++++.. 
T Consensus         5 ~~~tq~aI~~iK~~f~~~l~~~L~L~rVsaPlfv~~~~GlnD~LnG~ErpV~f~i~~~~~~~~eivhSLaKWKR~aL~~y   84 (330)
T 12as_A            5 YIAKQRQISFVKSHFSRQLEERLGLIEVQAPILSRVGDGTQDNLSGAEKAVQVKVKALPDAQFEVVHSLAKWKRQTLGQH   84 (330)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCEEECCCCSEEETTSSCSCCTTTTCCCCEECCSSSTTCCEEECSCCTTHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCcEEecCCEEecCCCCCCCCCCCceecceEecccCCCceEEEeeeHHHHHHHHHHhC
Confidence            4556778899999999     899999999999874321     13 23444443  3 78899999999999999864 


Q ss_pred             CC---ceeEEEecceecCcC-CCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcc
Q 013856          313 DF---GRVFETGPVFRAEDS-YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP  388 (435)
Q Consensus       313 g~---~rVfeIgp~FR~E~s-~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~  388 (435)
                      ||   +.+|+-.++.|.+.. -+++|.-+|+|.|||..+.. -+..|++++++++.|+..+...-    ..+...|...+
T Consensus        85 ~f~~geGlytdMnaIR~dee~ld~~HS~yvDQwDWE~vi~~-~~R~~~~Lk~tV~~Iy~~ik~tE----~~~~~~y~l~p  159 (330)
T 12as_A           85 DFSAGEGLYTHMKALRPDEDRLSPLHSVYVDQWDWERVMGD-GERQFSTLKSTVEAIWAGIKATE----AAVSEEFGLAP  159 (330)
T ss_dssp             TCCTTCEEEEEEEEECTTCSCCCSSCCSEEEEEEEEEECCT-TCCSHHHHHHHHHHHHHHHHHHH----HHHHHHSCCCC
T ss_pred             CCCCCCeeEecCcccccCcccCCCceeEEEeeeeeEEeccc-cchHHHHHHHHHHHHHHHHHHHH----HHHHHHhccCc
Confidence            57   999999999997654 68999999999999999986 57889999999888887775321    12444452222


Q ss_pred             ccCCCCCccccHHHHHHHH
Q 013856          389 LKYKPKTLRLTFEEGVQML  407 (435)
Q Consensus       389 ~~~~~p~~rit~~eai~ll  407 (435)
                      . +..++..||.+|..+++
T Consensus       160 ~-Lp~~i~fitsqeL~~~Y  177 (330)
T 12as_A          160 F-LPDQIHFVHSQELLSRY  177 (330)
T ss_dssp             C-SCSSCEEEEHHHHHHHS
T ss_pred             C-CCCceEEEeHHHHHHHc
Confidence            1 45678889988888743

>1evl_A Threonyl-tRNA synthetase; amino acid recognition, zinc ION, adenylate analog, deletion mutant, ligase; HET: TSB; 1.55A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1evk_A* 1fyf_A* 1kog_A*

Probab=98.22  E-value=1.9e-06  Score=87.89  Aligned_cols=113  Identities=19%  Similarity=0.200  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC-----CcceeeeccCCCceeeccChHH-----HHhhhccC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG-----GSAVFRLDYKGQSACLAQSPQL-----HKQMSICG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg-----ga~~F~~~~~~~~~~L~~Spql-----~lq~li~~  312 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|.....   -|     +.+.|.++--|..++|+-...-     |.+.+...
T Consensus        28 ~g~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~sG~~~~~~~em~~~d~~~~~~~LrP~~~~~~~~~~~~~~~s~  107 (401)
T 1evl_A           28 DGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSY  107 (401)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHTHHHHSGGGCCEEEETTEEEEECSCSHHHHHHHHTSSCCBG
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECCeeccHHHHHhcCcHhhhchhhEeEecCCceEEEcCCCCHHHHHHHHhhhhhh
Confidence            45678899999999999999999999999987531   01     2245665556788999966543     33322111


Q ss_pred             -CC-ceeEEEecceecCcCCCCc----cccchhhheeeecccccHHHHHHHHHHH
Q 013856          313 -DF-GRVFETGPVFRAEDSYTHR----HLCEFTGLDVEMEIKKHYSEVMDIVDCL  361 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s~t~r----Hl~EFt~lE~e~a~~~~~~d~m~~~e~l  361 (435)
                       .+ -|+|+||+|||+|.+ +.+    -..||+|+|+|. |.+ ..++....+++
T Consensus       108 ~~lP~r~~~~g~~fR~E~~-~p~~Gl~R~reF~q~d~~~-f~~-~~~~~~e~~e~  159 (401)
T 1evl_A          108 RDLPLRMAEFGSCHRNEPS-GSLHGLMRVRGFTQDDAHI-FCT-EEQIRDEVNGC  159 (401)
T ss_dssp             GGCSEEEEEEEEEECCCCG-GGCBTTTBCSEEEEEEEEE-EEC-GGGHHHHHHHH
T ss_pred             hhCChhhccccceecCCCC-cccccccccCcEEecceEE-eCC-HHHHHHHHHHH
Confidence             22 499999999999985 222    347999999994 554 34443333333

>1qe0_A Histidyl-tRNA synthetase; class II tRNA synthetase, beta sheet, ligase; 2.70A {Staphylococcus aureus} SCOP: c.51.1.1 d.104.1.1

Probab=98.20  E-value=1.4e-06  Score=89.08  Aligned_cols=118  Identities=18%  Similarity=0.244  Sum_probs=75.2

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----CCCC------cceeee-ccCCCceeeccCh--H---HHHhhh
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----SEGG------SAVFRL-DYKGQSACLAQSP--Q---LHKQMS  309 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~egg------a~~F~~-~~~~~~~~L~~Sp--q---l~lq~l  309 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|....    +-||      .+.|.+ +--|+.++|+--.  .   +|....
T Consensus        14 ~~~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~~~g~~~~~~~~~m~~~~D~~g~~~~Lrp~~t~~~~r~~~~~~   93 (420)
T 1qe0_A           14 EDSKKWRYIENQLDELMTFYNYKEIRTPIFESTDLFARGVGDSTDVVQKEMYTFKDKGDRSITLRPEGTAAVVRSYIEHK   93 (420)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCEECBCCSEEEHHHHCC-----------CCEEECHHHHCCEEECSCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEccCcccchHHHhhhccCCccchhhhheEEEEcCCCCEEEeCCCChHHHHHHHHhcc
Confidence            4567889999999999999999999999998743    1122      135655 3346778887332  2   222222


Q ss_pred             cc--CC-CceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          310 IC--GD-FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       310 i~--~g-~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      ..  .. --|+|+||+|||+|.+ ..-+.-||+|+|+|.-..++.   .+++.++.+++..
T Consensus        94 ~~~~~~lP~r~~~~g~vfR~E~~-~~gR~reF~q~~~e~~~~~~~~~d~e~i~~~~~~l~~  153 (420)
T 1qe0_A           94 MQGNPNQPIKLYYNGPMFRYERK-QKGRYRQFNQFGVEAIGAENPSVDAEVLAMVMHIYQS  153 (420)
T ss_dssp             GGGCSSCSEEEEEEEEEECC--------CCEEEEEEEEEESCCCHHHHHHHHHHHHHHHHH
T ss_pred             ccccCCCCeEEEEecCEeecCCC-cCCCcccEEEeeEEEECCCCchhHHHHHHHHHHHHHH
Confidence            22  12 2599999999999975 334578999999998766533   3566666555554

>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, nationa on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus}

Probab=98.20  E-value=3.7e-06  Score=86.78  Aligned_cols=115  Identities=12%  Similarity=0.154  Sum_probs=76.5

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C----CCCcceeeeccCCCceeeccChH-----HHHhhhccC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S----EGGSAVFRLDYKGQSACLAQSPQ-----LHKQMSICG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~----egga~~F~~~~~~~~~~L~~Spq-----l~lq~li~~  312 (435)
                      .-.+++..|.+.+++++...||.||.||.|....    +    ..+-+.|.+.  +..+||+-..+     +|....+..
T Consensus       170 ~ga~l~~~L~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sG~~~~f~~emy~~~--~~~l~LrPt~e~~i~~~~~~~i~s~  247 (425)
T 2dq3_A          170 WGARLERALINFMLDLHTKKGYKEICPPHLVKPEILIGTGQLPKFEEDLYKCE--RDNLYLIPTAEVPLTNLYREEILKE  247 (425)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEECHHHHHHHSCTTTTGGGSCBCT--TTCCEECSSTHHHHHGGGTTEEEET
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHHhcCCCCcChhhheEec--CCeEEEcCCCcHHHHHHHHhhcccc
Confidence            5567889999999999999999999999998744    1    1122355543  67889985443     344433332


Q ss_pred             -CC-ceeEEEecceecCcCCCC------ccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          313 -DF-GRVFETGPVFRAEDSYTH------RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s~t~------rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                       .+ -|+|++|+|||+|.+...      --..||+|+|++.- .. -++..+..++++..
T Consensus       248 ~~LPlrl~~~g~~FR~E~~~~Gr~~~Gl~R~reF~q~E~~~f-~~-pe~s~~~~~e~i~~  305 (425)
T 2dq3_A          248 ENLPIYLTAYTPCYRREAGAYGKDIRGIIRQHQFDKVELVKI-VH-PDTSYDELEKLVKD  305 (425)
T ss_dssp             TTCCEEEEEEEEEECCCCSCCSSSCSSSSSCSEEEEEEEEEE-EC-GGGHHHHHHHHHHH
T ss_pred             ccCCeEEEEecCEecCCCCcccccccCcccccceEEeeEEEE-CC-HHHHHHHHHHHHHH
Confidence             22 499999999999985311      13459999999763 32 23444444444443

>3pco_A Phenylalanyl-tRNA synthetase, alpha subunit; aminoacylation, tRNA-binding, DNA-binding domain, four-helix aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP; 3.02A {Escherichia coli}

Probab=98.17  E-value=2.2e-06  Score=85.46  Aligned_cols=112  Identities=12%  Similarity=0.172  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecC--------CCCC-cc-eeeeccCCCceeec--cChHHHHhhhccCCCc--ee
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGS--------SEGG-SA-VFRLDYKGQSACLA--QSPQLHKQMSICGDFG--RV  317 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~--------~egg-a~-~F~~~~~~~~~~L~--~Spql~lq~li~~g~~--rV  317 (435)
                      +.+.+.||++|...||.|+.+|.+.+..        .+.+ +. .-.+-|.+....||  .||.+- + .+..+-.  |+
T Consensus       110 ~~~~~~Ir~if~~~Gf~ev~~~~ve~~~~nFd~Ln~p~dhpaR~~~dt~~i~e~~vLRThtsp~~l-r-~l~~~~~piri  187 (327)
T 3pco_A          110 TRTIDRIESFFGELGFTVATGPEIEDDYHNFDALNIPGHHPARADHDTFWFDTTRLLRTQTSGVQI-R-TMKAQQPPIRI  187 (327)
T ss_dssp             HHHHHHHHHHHHTTTCBCCCCCSEECTCCCCCTTTCCSSSHHHHHTTCCBSSSSCEECSCTHHHHH-H-HHTTCCSSCCB
T ss_pred             HHHHHHHHHHHHHCCCeEEECCCccCCHHHHHhhCCCCCChhhcccccEEeCCCceecccCCHHHH-H-HHHhCCCCeeE
Confidence            3457889999999999999999885421        0111 11 00012334455666  556552 2 3344433  99


Q ss_pred             EEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856          318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~  367 (435)
                      |++|+|||++  .+.+|+|+|.|+|..+... -++.++..+++.++..+|.
T Consensus       188 feiGrVyR~d--~d~th~p~fhqlegl~v~~~v~f~dLKg~Le~~l~~lfg  236 (327)
T 3pco_A          188 IAPGRVYRND--YDQTHTPMFHQMEGLIVDTNISFTNLKGTLHDFLRNFFE  236 (327)
T ss_dssp             CCEECCBCSC--CBTTBCSBCCEEEEEEEETTCCHHHHHHHHHHHHHHHHC
T ss_pred             EeeccEEecC--CCcccCCcccEEEEEEECCCCCHHHHHHHHHHHHHHHhC
Confidence            9999999997  3788999999999866532 1388999999999998875

>2i4l_A Proline-tRNA ligase; alpha beta; 2.00A {Rhodopseudomonas palustris} PDB: 2i4m_A* 2i4n_A* 2i4o_A*

Probab=98.14  E-value=4.7e-06  Score=86.66  Aligned_cols=104  Identities=15%  Similarity=0.109  Sum_probs=73.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----CC----CCcceeee-ccCCCceeeccC-----hHHHHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----SE----GGSAVFRL-DYKGQSACLAQS-----PQLHKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~e----gga~~F~~-~~~~~~~~L~~S-----pql~lq~li~  311 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|....    ++    .+.+.|.+ +--|+.++|+..     +.++...+..
T Consensus        65 ~g~~~~~~i~~~ir~~~~~~G~~ei~tP~l~~~el~~~sg~~d~~~~em~~~~d~~~~~~~LrPt~ee~t~~i~r~~~~s  144 (458)
T 2i4l_A           65 LGHRVLKKIEQIVREEQNRAGAIELLMPTLQLADLWRESGRYDAYGPEMLRIADRHKRELLYGPTNEEMITEIFRAYIKS  144 (458)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHTHHHHSCTTSEEEECTTCCEEEECSCCHHHHHHHHHHHCCB
T ss_pred             CHHHHHHHHHHHHHHHHHHcCCEEEEcCccCcHHHHHhcCCccccccceEEEEeCCCCeEEECCCChHHHHHHHHHHHhh
Confidence            4678899999999999999999999999998753    11    12335665 345788899863     2444443221


Q ss_pred             C-CC-ceeEEEecceecCcCCCC--ccccchhhheeeecccc
Q 013856          312 G-DF-GRVFETGPVFRAEDSYTH--RHLCEFTGLDVEMEIKK  349 (435)
Q Consensus       312 ~-g~-~rVfeIgp~FR~E~s~t~--rHl~EFt~lE~e~a~~~  349 (435)
                      . .+ -|+|+||+|||+|-+...  --..||+|+|+|.-..+
T Consensus       145 ~~~lP~rl~~ig~~fR~E~~p~~Gl~R~REF~q~d~~~f~~~  186 (458)
T 2i4l_A          145 YKSLPLNLYHIQWKFRDEQRPRFGVMRGREFLMKDAYSFDVD  186 (458)
T ss_dssp             GGGCSEEEEEEEEEECCCSSCBTGGGBCSEEEEEEEEEEESS
T ss_pred             ccccCeeeEEecCEeeCCCCCCCCcccccceEEeEEEEEECC
Confidence            1 12 499999999999942111  13579999999987654

>1z7m_A ATP phosphoribosyltransferase regulatory subunit; ATP-PRT, histidine biosynthesis, hiszg, alloste evolution; 2.90A {Lactococcus lactis} SCOP: d.104.1.1 PDB: 1z7n_A*

Probab=98.12  E-value=5.9e-06  Score=82.89  Aligned_cols=117  Identities=17%  Similarity=0.200  Sum_probs=73.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC------C----CCcceeee-ccCCCceeecc--ChHHHHhhhcc-
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS------E----GGSAVFRL-DYKGQSACLAQ--SPQLHKQMSIC-  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~------e----gga~~F~~-~~~~~~~~L~~--Spql~lq~li~-  311 (435)
                      .-.+++..|.+.+|+.|...||.||.||++.....      +    .+.+.|++ +--|+.+.|+-  .|.+..-.+-. 
T Consensus        34 ~~~~~~~~i~~~i~~~~~~~Gy~eI~tP~le~~el~~~s~~g~~~~~~~~my~~~D~~g~~l~LRpd~T~~~aR~~~~~~  113 (344)
T 1z7m_A           34 NQVKSLRQIEGRLRKLFSLKNYQEVMPPSFEYTQLYTALESNGKTFNQEKMFQFIKHEGQSITLRYDFTLPLVRLYSQIK  113 (344)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHHHHCSSSCCCTTSCCEEECTTCCEEEECCCSHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEecCcccCcHHHHhhccCCccccccccEEEEECCCCCEEecCCCCcHHHHHHHHhcC
Confidence            45678889999999999999999999999976421      1    12345665 44567777773  22322211111 


Q ss_pred             -CCCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHH
Q 013856          312 -GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFV  363 (435)
Q Consensus       312 -~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~  363 (435)
                       ..--|.|+||+|||+|.+ ..-+.-||+|+++|.-..++.   .+++.++.+++.
T Consensus       114 ~~~P~rl~y~g~vfR~e~p-~~gR~REF~Q~g~ei~g~~~~~aDaEvi~l~~~~l~  168 (344)
T 1z7m_A          114 DSTSARYSYFGKIFRKEKR-HKGRSTENYQIGIELFGESADKSELEILSLALQVIE  168 (344)
T ss_dssp             SCCCEEEEEEEECCCCCC--------CCEEEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECcEEccCCC-CCCCcceeEEEEEEEEcCCCcHHHHHHHHHHHHHHH
Confidence             123599999999999976 344778999999998765432   244444444443

>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A {Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1

Probab=98.07  E-value=1.4e-05  Score=82.20  Aligned_cols=104  Identities=14%  Similarity=0.118  Sum_probs=73.2

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC---C-CC---Ccceeee-ccCCCceeeccC--hHHHHhhhccCC--
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---S-EG---GSAVFRL-DYKGQSACLAQS--PQLHKQMSICGD--  313 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~-eg---ga~~F~~-~~~~~~~~L~~S--pql~lq~li~~g--  313 (435)
                      .-.+++..|.+.+|+.|...||.||.||++....   . -|   +.+.|.+ +--|+.+.|+-=  |.+..-.+-...  
T Consensus        18 ~~~~~~~~i~~~i~~~~~~~G~~ei~tP~le~~el~~~~~G~~~~~em~~~~D~~g~~l~LrPd~t~~~aR~~~~~~~~~   97 (434)
T 1wu7_A           18 EDMDVEKFIFKTAEEAAEAFGFRRIDFPSLEYLDLYRIKSGEELLQQTYSFVDKGGREVTLIPEATPSTVRMVTSRKDLQ   97 (434)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEETHHHHTTSCTTGGGGSCEEECTTSCEEEECSCSHHHHHHHHTTCTTCC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEeeccccccHHHhhhccCCccccceEEEECCCCCEEEeCCCChHHHHHHHHhcCCCC
Confidence            4567889999999999999999999999998743   1 12   2346776 445677888732  233222111111  


Q ss_pred             C-ceeEEEecceecCcCCCCccccchhhheeeeccccc
Q 013856          314 F-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH  350 (435)
Q Consensus       314 ~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~  350 (435)
                      + -|.|+||++||.|.+. .-+.-||+|+++|.-..++
T Consensus        98 lP~rl~~~g~vfR~erp~-~gR~REF~Q~d~ei~g~~~  134 (434)
T 1wu7_A           98 RPLRWYSFPKVWRYEEPQ-AGRYREHYQFNADIFGSDS  134 (434)
T ss_dssp             SSEEEEECCEEECCCCSC-SSCCSEEEEEEEEEESCCS
T ss_pred             CCeEEEEEcCeecCCCCC-CCCccceEEeeEEEEcCCC
Confidence            2 4999999999999764 3357899999999876553

>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A {Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1 PDB: 1nyq_A*

Probab=98.05  E-value=7.1e-06  Score=88.84  Aligned_cols=114  Identities=15%  Similarity=0.112  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCC-----cceeee-ccCC-CceeeccChH-----HHHhhhc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGG-----SAVFRL-DYKG-QSACLAQSPQ-----LHKQMSI  310 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egg-----a~~F~~-~~~~-~~~~L~~Spq-----l~lq~li  310 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|.....   -|+     -+.|.+ +--| +.++|+--..     +|.+...
T Consensus       269 ~g~~~~~~l~~~ir~~~~~~Gy~eV~tP~l~~~~l~~~sG~~d~~~~~mf~~~d~~~~~~~~LrP~~~~~~~~~~~~~~~  348 (645)
T 1nyr_A          269 NGATIRREIERYIVDKEVSMGYDHVYTPVLANVDLYKTSGHWDHYQEDMFPPMQLDETESMVLRPMNCPHHMMIYANKPH  348 (645)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTEEECBCCSEEETHHHHHHTHHHHCTTSSCCCEEETTTEEEEECSSSHHHHHHHHHTSCC
T ss_pred             CHHHHHHHHHHHHHHHHHHcCCEEEECCeeccHHHHhhCCCccccccCcceeEecCCCeEEEeCCCCCHHHHHHHHhhhh
Confidence            45788999999999999999999999999987431   121     234543 3346 7788885432     3333221


Q ss_pred             cC-CC-ceeEEEecceecCcCCCCcc----ccchhhheeeecccccHHHHHHHHHHHH
Q 013856          311 CG-DF-GRVFETGPVFRAEDSYTHRH----LCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       311 ~~-g~-~rVfeIgp~FR~E~s~t~rH----l~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                      .. .+ -|+|+||+|||+|.+. .+|    .-||||+|+|. |.+ .+.+.+...+++
T Consensus       349 syr~LPlrl~~~g~~fR~E~~~-~~~GL~R~ReF~Q~d~~~-f~~-~~~~~d~~~e~i  403 (645)
T 1nyr_A          349 SYRELPIRIAELGTMHRYEASG-AVSGLQRVRGMTLNDSHI-FVR-PDQIKEEFKRVV  403 (645)
T ss_dssp             BGGGCCEEEEEEEEEECCCCTT-TCBTTTBCSEEEEEEEEE-EEC-GGGHHHHHHHHH
T ss_pred             hccCCCeEEEEeccEEecCCCc-cccCcceeeeEEEccEEE-EcC-HHHHHHHHHHHH
Confidence            11 22 3999999999999973 333    47999999998 543 344444333333

>1hc7_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP + L-proline + tRNA(Pro) AMP + PPI + L-prolyl-tRNA(Pro); 2.43A {Thermus thermophilus} SCOP: c.51.1.1 d.68.5.1 d.104.1.1 PDB: 1h4q_A* 1h4t_A 1h4s_A

Probab=98.01  E-value=2e-05  Score=82.45  Aligned_cols=115  Identities=12%  Similarity=0.066  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCC------cceeeeccC-----CCceeeccChH-----HHH
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGG------SAVFRLDYK-----GQSACLAQSPQ-----LHK  306 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egg------a~~F~~~~~-----~~~~~L~~Spq-----l~l  306 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|.+...   ++|      .+.|.+..-     +.+++|+--..     +|.
T Consensus        42 ~g~~l~~~I~~~~r~~~~~~G~~ei~tP~l~~~el~~~~sgh~d~f~~emy~~~d~g~~~l~~~l~LRP~~~~~i~~~~~  121 (477)
T 1hc7_A           42 YGYAIWENIQQVLDRMFKETGHQNAYFPLFIPMSFLRKEAEHVEGFSPELAVVTHAGGEELEEPLAVRPTSETVIGYMWS  121 (477)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEESTTC---------CCTTCEEEEEESSSEEEEEEEECSCSHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEecCccccHHHHhhcCCcccccccceEEEECCCCccCCCeEEEcCCCcHHHHHHHH
Confidence            44678889999999999999999999999987652   122      235665432     57889986554     566


Q ss_pred             hhhccC-CC-ceeEEEecceecCcC-CCCccccchhhheeeecccccHHHHHHHHHHH
Q 013856          307 QMSICG-DF-GRVFETGPVFRAEDS-YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCL  361 (435)
Q Consensus       307 q~li~~-g~-~rVfeIgp~FR~E~s-~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l  361 (435)
                      +.+... .+ -|+|+||+|||+|.+ ...--.-||+|+|.+..+.+ ..+....+..+
T Consensus       122 ~~~~s~r~LP~rl~qig~vfR~E~~~rGl~R~REF~q~d~~~~~~~-~~~ad~E~~~~  178 (477)
T 1hc7_A          122 KWIRSWRDLPQLLNQWGNVVRWEMRTRPFLRTSEFLWQEGHTAHAT-REEAEEEVRRM  178 (477)
T ss_dssp             HHCCBGGGCCEEEEEEEEEECCCSSCBTTTBCSEEEEEEEEEEESS-HHHHHHHHHHH
T ss_pred             hhhhccccCCeeeEeecCEEeCCCCCCCcceeEEEEEccEEEEeCC-HHHHHHHHHHH
Confidence            543321 23 399999999999964 22113469999999998875 55554444444

>1h4v_B Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA synthetase, ATP + L-histidine tRNA(His)-> AMP + PPI + L-histidyl-tRNA(His); 2.4A {Thermus thermophilus} SCOP: c.51.1.1 d.104.1.1 PDB: 1ady_A* 1adj_A

Probab=97.99  E-value=1.5e-05  Score=81.47  Aligned_cols=117  Identities=20%  Similarity=0.281  Sum_probs=77.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CC-Cc-------ceeee-ccCCCceeecc--ChHHHHhhh---
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EG-GS-------AVFRL-DYKGQSACLAQ--SPQLHKQMS---  309 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--eg-ga-------~~F~~-~~~~~~~~L~~--Spql~lq~l---  309 (435)
                      .-.+++..|.+.+|+-|...||.||.||++.....  .+ |.       +.|.+ +--|+.+.|+-  .|.+..-.+   
T Consensus        15 ~~~~~~~~i~~~i~~~~~~~G~~ei~tP~le~~el~~~~~G~~~d~~~~em~~~~D~~g~~l~Lrpd~t~~~ar~~~~~~   94 (421)
T 1h4v_B           15 KELRMHQRIVATARKVLEAAGALELVTPIFEETQVFEKGVGAATDIVRKEMFTFQDRGGRSLTLRPEGTAAMVRAYLEHG   94 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEecccccccHHHhhhccCCcccccccceEEEECCCCCEEeeCCcchHHHHHHHHhcc
Confidence            34578889999999999999999999999976431  11 22       46765 44567777773  333332211   


Q ss_pred             cc-CC-CceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHH
Q 013856          310 IC-GD-FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFV  363 (435)
Q Consensus       310 i~-~g-~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~  363 (435)
                      .. .. --|.|+||++||.|.+. .-+.-||+|+++|.-..++.   .+++.++.+++.
T Consensus        95 ~~~~~lP~rl~~~g~vfR~e~p~-~gR~REf~Q~g~e~~g~~~~~ad~e~i~~~~~~l~  152 (421)
T 1h4v_B           95 MKVWPQPVRLWMAGPMFRAERPQ-KGRYRQFHQVNYEALGSENPILDAEAVVLLYECLK  152 (421)
T ss_pred             ccccCCCeEEEEecCeecCCCCC-CCCcccEEEccEEEECCCChhhhHHHHHHHHHHHH
Confidence            11 11 24999999999999764 33568999999998765432   144444444443

>3od1_A ATP phosphoribosyltransferase regulatory subunit; structural genomics, PSI-2, protein structure initiative; 1.97A {Bacillus halodurans}

Probab=97.94  E-value=2.6e-05  Score=79.72  Aligned_cols=118  Identities=17%  Similarity=0.192  Sum_probs=77.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC------CCCcceeee-ccCCCceeecc--ChHHH---HhhhccCC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS------EGGSAVFRL-DYKGQSACLAQ--SPQLH---KQMSICGD  313 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~------egga~~F~~-~~~~~~~~L~~--Spql~---lq~li~~g  313 (435)
                      .-.+++..|.+.+|+.|...||.||.||++.....      ....+.|.+ +--|+.+.|+-  .|.+.   ...+-...
T Consensus        22 ~~~~~~~~i~~~l~~~~~~~Gy~eI~tP~lE~~el~~~~g~~~~~~my~f~D~~g~~l~LRpd~T~~~aR~~~~~~~~~~  101 (400)
T 3od1_A           22 EWYKTKKNICDQMTEEINLWGYDMIETPTLEYYETVGVVSAILDQQLFKLLDQQGNTLVLRPDMTAPIARLVASSLKDRA  101 (400)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEETTTHHHHSSSCGGGSCEEECTTSCEEEECSCSHHHHHHHHHHHCSSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCCccccceEEEECCCCCEEEECCCCHHHHHHHHHhhcccCC
Confidence            44577889999999999999999999999965431      112336765 34567777762  22322   22111122


Q ss_pred             C-ceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          314 F-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       314 ~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      + -|.|+||+|||.|.+. .-+.-||+|+++|.-..++.   -+++.++.+++..
T Consensus       102 ~P~r~~y~g~vfR~e~~~-~gR~Ref~Q~g~ei~G~~~~~aDaEvi~l~~~~l~~  155 (400)
T 3od1_A          102 YPLRLAYQSNVYRAQQNE-GGKPAEFEQLGVELIGDGTASADGEVIALMIAALKR  155 (400)
T ss_dssp             SCEEEEEEEEEECCCC----CCCSEEEEEEEEEESCCSHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCEEeCCCCC-CCCCCccEEeEEEEECCCChHhHHHHHHHHHHHHHH
Confidence            2 4999999999999863 44678999999998665432   2566666666554

>4e51_A Histidine--tRNA ligase; seattle structural genomics center for infectious disease, S aminoacylation, tRNA activation, charged tRNA; HET: HIS; 2.65A {Burkholderia thailandensis}

Probab=97.94  E-value=1.5e-05  Score=83.20  Aligned_cols=118  Identities=17%  Similarity=0.212  Sum_probs=77.8

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---C-CC------cceeee-ccC-CCceeecc--ChHHH---Hhh
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---E-GG------SAVFRL-DYK-GQSACLAQ--SPQLH---KQM  308 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---e-gg------a~~F~~-~~~-~~~~~L~~--Spql~---lq~  308 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|.....   . |.      .+.|.+ +-- |+.+.|+-  .|.+.   .+.
T Consensus        44 ~~~~~~~~l~~~i~~~~~~~Gy~eI~tP~le~~el~~~~~G~~~d~~~~~my~~~D~~~g~~l~LRPd~t~~~ar~~~~~  123 (467)
T 4e51_A           44 QDAGLWEFFEATVKSLLRAYGYQNIRTPIVEHTPLFTRGIGEVTDIVEKEMYSFVDALNGENLTLRPENTAAVVRAAIEH  123 (467)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHTCTTSHHHHHTCCEEECTTTCCEEEECSCSHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHhhhccCCcccccccceEEEecCCCCCEEEeCcccHHHHHHHHHHc
Confidence            45678899999999999999999999999976431   1 22      235765 334 77788872  23322   221


Q ss_pred             hccCC-CceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          309 SICGD-FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       309 li~~g-~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      ..... --|.|+||+|||.|.+.. -+.-||+|+++|+-..++.   .+++.++.+++..
T Consensus       124 ~~~~~lP~r~~~~g~vfR~E~~~~-gR~ReF~Q~d~ei~g~~~~~adaEvi~l~~~~l~~  182 (467)
T 4e51_A          124 NMLYDGPKRLWYIGPMFRHERPQR-GRYRQFHQVGVEALGFAGPDADAEIVMMCQRLWED  182 (467)
T ss_dssp             TTTTTSCEEEEEEEEEECCCCC----CCSEEEEEEEEEETCCCSHHHHHHHHHHHHHHHH
T ss_pred             ccccCCCEEEEEEccEEccCCCCC-CCcCceEEEEEEEEeCCChHHHHHHHHHHHHHHHH
Confidence            11111 249999999999998644 4567999999997544321   3466666665554

>1htt_A Histidyl-tRNA synthetase; complex (tRNA synthetase/His-adenylate), aminoacyl-tRNA synthase, ligase; HET: HIS AMP; 2.60A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1kmm_A* 1kmn_A* 2el9_A*

Probab=97.91  E-value=2e-05  Score=80.72  Aligned_cols=104  Identities=20%  Similarity=0.248  Sum_probs=72.8

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---C-CC------cceeee-ccCCCceeecc--ChHHHHhhhcc-
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---E-GG------SAVFRL-DYKGQSACLAQ--SPQLHKQMSIC-  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---e-gg------a~~F~~-~~~~~~~~L~~--Spql~lq~li~-  311 (435)
                      .-.+++..|.+.+|+.|...||.||.||++.....   . |.      .+.|.+ +--|+.+.|+-  .|.+..-.+-. 
T Consensus        16 ~~~~~~~~i~~~i~~~~~~~G~~ei~tP~le~~el~~~~~G~~~d~~~~em~~~~D~~g~~l~Lrpd~t~~~aR~~~~~~   95 (423)
T 1htt_A           16 GETAIWQRIEGTLKNVLGSYGYSEIRLPIVEQTPLFKRAIGEVTDVVEKEMYTFEDRNGDSLTLRPEGTAGCVRAGIEHG   95 (423)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEECBCCSEEEHHHHHHHHCSSSHHHHHTCEEEECTTSCEEEECSCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEecccccCHHHHHhhccCCchhhhhhheEEEEcCCCCEEEeCCCchHHHHHHHHhcc
Confidence            34678889999999999999999999999987431   1 21      246776 44567777773  22332211101 


Q ss_pred             --CC-CceeEEEecceecCcCCCCccccchhhheeeeccccc
Q 013856          312 --GD-FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH  350 (435)
Q Consensus       312 --~g-~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~  350 (435)
                        .. --|.|+||++||.|.+. .-+.-||+|+++|.-..++
T Consensus        96 ~~~~~P~rl~~~g~vfR~e~p~-~gR~Ref~Q~d~e~~g~~~  136 (423)
T 1htt_A           96 LLYNQEQRLWYIGPMFRHERPQ-KGRYRQFHQLGCEVFGLQG  136 (423)
T ss_dssp             CSTTCCEEEEEEEEEECCCCCC-SSCCSEEEEEEEEEESCCS
T ss_pred             cccCCCeEEEEEcCEecCCCCC-CCccceeEEeeEEEECCCC
Confidence              11 25999999999999763 4467899999999876553

>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A {Homo sapiens}

Probab=97.89  E-value=3.9e-05  Score=80.67  Aligned_cols=100  Identities=11%  Similarity=0.076  Sum_probs=69.1

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-------CC-Ccceeeecc---------CCCceeeccChHHHHhh
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-------EG-GSAVFRLDY---------KGQSACLAQSPQLHKQM  308 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-------eg-ga~~F~~~~---------~~~~~~L~~Spql~lq~  308 (435)
                      .-.+++.+|++++++.+.++||.||.||.|.....       ++ +.+.|.+.-         .+.++||.-..+.-+=.
T Consensus       199 ~GarL~raL~~f~~d~~~~~Gy~EV~~P~lv~~el~~~sG~l~~f~eemy~v~~~g~~~~~~~~~~~l~L~PTaE~~l~~  278 (522)
T 3vbb_A          199 VLVFLEQALIQYALRTLGSRGYIPIYTPFFMRKEVMQEVAQLSQFDEELYKVIGKGSEKSDDNSYDEKYLIATSEQPIAA  278 (522)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHSCCC-CCSCCCEEC------------CCEEECSSTHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCcccchHHHhhcCCcccCcccceEeecCCccccccccCcceeEcccCcHHHHH
Confidence            56789999999999999999999999999977432       11 234676643         24678998766554432


Q ss_pred             hccC------CC-ceeEEEecceecCcCC------CCccccchhhheeee
Q 013856          309 SICG------DF-GRVFETGPVFRAEDSY------THRHLCEFTGLDVEM  345 (435)
Q Consensus       309 li~~------g~-~rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~  345 (435)
                      +...      .+ =|+|++|+|||+|.+.      +.--.-||+|.|.+.
T Consensus       279 l~~~ei~s~~dLPlr~~~~s~cFR~Eags~GrdtrGL~RvhQF~kvE~~~  328 (522)
T 3vbb_A          279 LHRDEWLRPEDLPIKYAGLSTCFRQEVGSHGRDTRGIFRVHQFEKIEQFV  328 (522)
T ss_dssp             TSTTCEECTTTCCEEEEEEEEEECSCCCC----CCCSSSCSEEEEEEEEE
T ss_pred             HHhhhecccccCCeeEEEecccccCCCCcCCccCCCcceeeeeEEEEEEE
Confidence            2211      12 3799999999999741      112335999999974

>2j3l_A Prolyl-tRNA synthetase; class II aminoacyl- T synthetase, editing, translation; HET: P5A; 2.3A {Enterococcus faecalis} PDB: 2j3m_A*

Probab=97.89  E-value=2.9e-05  Score=82.74  Aligned_cols=112  Identities=19%  Similarity=0.204  Sum_probs=77.3

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-C-----Ccceeee-ccCCCceeeccCh-----HHHHhhhcc
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-G-----GSAVFRL-DYKGQSACLAQSP-----QLHKQMSIC  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-g-----ga~~F~~-~~~~~~~~L~~Sp-----ql~lq~li~  311 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|.....  . |     +.+.|.+ +--|+.++|+--.     .+|...+..
T Consensus        45 ~g~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~sG~~~~~~~~m~~~~d~~~~~~~LrP~~~~~~~~~~~~~~~s  124 (572)
T 2j3l_A           45 LANRVLEKLKTIMREEFEKIDAVEMLMPALLPAELWKESGRYETYGPNLYRLKDRNDRDYILGPTHEETFTELIRDEINS  124 (572)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEECBCCSEEETHHHHHHSHHHHSCTTSCEEECTTCCEEEECSCCHHHHHHHHHHHCCB
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHHhcCCccccchheEEEecCCCCeEEEccccHHHHHHHHHhhccC
Confidence            45788999999999999999999999999987531  1 2     2235665 3356889997444     244543321


Q ss_pred             -CCC-ceeEEEecceecCcCCCCcc----ccchhhheeeecccccHHHHHHHHHH
Q 013856          312 -GDF-GRVFETGPVFRAEDSYTHRH----LCEFTGLDVEMEIKKHYSEVMDIVDC  360 (435)
Q Consensus       312 -~g~-~rVfeIgp~FR~E~s~t~rH----l~EFt~lE~e~a~~~~~~d~m~~~e~  360 (435)
                       ..+ -|+|+||+|||+|.+ . +|    .-||+|+|+|.-..+ -.++...+..
T Consensus       125 ~~~lP~r~~~~g~~fR~E~~-~-~~Gl~R~ReF~q~d~~~f~~~-~~~~~~e~~~  176 (572)
T 2j3l_A          125 YKRLPLNLYQIQTKYRDEKR-S-RSGLLRGREFIMKDGYSFHAD-EASLDQSYRD  176 (572)
T ss_dssp             GGGCCEEEEEEEEEECCCSS-C-CTGGGSCSEEEEEEEEEEESS-HHHHHHHHHH
T ss_pred             hhhcCHhhheecCeeccCcC-c-ccCccccceeEEeeeEEEcCC-HHHHHHHHHH
Confidence             122 399999999999986 3 33    379999999987653 3344333333

>1nj8_A Proline-tRNA synthetase, proline--tRNA ligase; class-II tRNA synthetase; 3.20A {Methanocaldococcus jannaschii} SCOP: c.51.1.1 d.68.5.1 d.104.1.1

Probab=97.88  E-value=4.2e-05  Score=79.57  Aligned_cols=112  Identities=19%  Similarity=0.164  Sum_probs=77.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC----CC-----CcceeeeccC-----CCceeeccChH-----HHH
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS----EG-----GSAVFRLDYK-----GQSACLAQSPQ-----LHK  306 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~----eg-----ga~~F~~~~~-----~~~~~L~~Spq-----l~l  306 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|.....    -|     +.+.|.+..-     +..++|+--..     +|.
T Consensus        36 ~g~~l~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~~~G~~~~~~~emy~~~d~g~~~~~~~l~LRP~~~~~i~~~~~  115 (459)
T 1nj8_A           36 YGFKIRRYTFEIIRNLLDESGHDEALFPMLIPEDLLAKEAEHIKGFEDEVYWVTHGGKTQLDVKLALRPTSETPIYYMMK  115 (459)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHCSSSGGGGGGCEEEEESSSSEEEEEEEECSSSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEeeCCcccCHHHHhhhcCcccccchhhEEEeccCcccCCCeeEECCCCcHHHHHHHH
Confidence            45678899999999999999999999999987431    11     2346766443     57889885443     344


Q ss_pred             hhhccC-CC-ceeEEEecceecCcCCCCc--cccchh-hheeeecccccHHHHHHHH
Q 013856          307 QMSICG-DF-GRVFETGPVFRAEDSYTHR--HLCEFT-GLDVEMEIKKHYSEVMDIV  358 (435)
Q Consensus       307 q~li~~-g~-~rVfeIgp~FR~E~s~t~r--Hl~EFt-~lE~e~a~~~~~~d~m~~~  358 (435)
                      +..... .+ =|+|+||+|||+|.+.+.-  -.-||+ |+|.+..+.+ -.++....
T Consensus       116 ~~~~s~r~LP~rl~qig~~fR~E~~~~rGl~R~REF~qq~d~~~~~~~-~~~a~~e~  171 (459)
T 1nj8_A          116 LWVKVHTDLPIKIYQIVNTFRYETKHTRPLIRLREIMTFKEAHTAHST-KEEAENQV  171 (459)
T ss_dssp             TTCCBTTSCCCCEEEEECCBCCCCSCCBTTTBCSBCSCEEEEEEEESS-HHHHHHHH
T ss_pred             HhhhhcccCCeEEEEEccEecCccCCCCCceEeeeeeccCcEEEEECC-HHHHHHHH
Confidence            432221 23 3999999999999862111  345999 9999988875 45554443

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A

Probab=97.88  E-value=6.4e-05  Score=77.41  Aligned_cols=115  Identities=11%  Similarity=0.141  Sum_probs=75.3

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C---C-CCcceeeeccCCCceeeccChHHHHhhhccC-----
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S---E-GGSAVFRLDYKGQSACLAQSPQLHKQMSICG-----  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~---e-gga~~F~~~~~~~~~~L~~Spql~lq~li~~-----  312 (435)
                      .-.+++..|.+.+++.+.+.||.||.||+|....    +   + -+.+.|.+.  +.++||+-..+-.+-.++..     
T Consensus       164 ~ga~l~~aL~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sG~~~~f~~emy~~~--d~~l~L~Pt~e~~~~~~~~~~~~s~  241 (421)
T 1ses_A          164 DLALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAIA--ETDLYLTGTAEVVLNALHSGEILPY  241 (421)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHTCTTTTGGGSCBBT--TSSEEECSSTHHHHHHTTTTCEEEG
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCceecHHHHHhcCCCCcCchhcEEEc--CCeEEEeecCcHHHHHHhcccccCc
Confidence            4567888999999999999999999999998743    1   1 122345553  56788887666544333322     


Q ss_pred             -CC-ceeEEEecceecCcC------CCCccccchhhheeeecccccHHHHHHHHHHHH
Q 013856          313 -DF-GRVFETGPVFRAEDS------YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s------~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                       .+ -|+|++|+|||+|-+      .+.--.-||+|+|++.....+.++..+..++++
T Consensus       242 ~~LPlr~~~~g~~FR~E~g~~Gr~~~GL~R~rqF~q~E~~~f~~p~~e~s~~~~~e~~  299 (421)
T 1ses_A          242 EALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELL  299 (421)
T ss_dssp             GGCSEEEEEEEEEECCCCSCCCSCCCTTSSCSEEEEEEEEEEECSCHHHHHHHHHHHH
T ss_pred             hhCCEEEEecCCeecCCccccCcCCCCCeeeeeeeeeeEEEEeCCCHHHHHHHHHHHH
Confidence             12 399999999999952      121134599999987644321244444444444

>3uh0_A Threonyl-tRNA synthetase, mitochondrial; threonine tRNA, threonyl ADE threonyl sulfamoyl adenylate; HET: TSB; 2.00A {Saccharomyces cerevisiae} PDB: 3ugt_A 3ugq_A* 4eo4_A*

Probab=97.88  E-value=3.3e-05  Score=80.42  Aligned_cols=117  Identities=16%  Similarity=0.147  Sum_probs=75.5

Q ss_pred             hHHHHHHHHHHHHHHHh-hcCCeeeecCceeeecC----C---CC-Ccceeeecc---CCCceeeccChH-----HHHhh
Q 013856          246 GIFRIQSQVGNIFRQFL-LSENFVEIHTPKLIAGS----S---EG-GSAVFRLDY---KGQSACLAQSPQ-----LHKQM  308 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl-~~~gF~EV~TP~l~~~~----~---eg-ga~~F~~~~---~~~~~~L~~Spq-----l~lq~  308 (435)
                      .-.+++..|.+.+|+.+ .+.||.||.||+|....    +   ++ +.+.|.+.-   -+..++|+--.+     +|.+.
T Consensus        62 ~g~~l~~~l~~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sGh~~~~~~emy~~~d~~~~~~~l~LrPt~~~~~~~~~~~~  141 (460)
T 3uh0_A           62 NGAKIFNKLIEFMKLQQKFKFGFNEVVTPLIYKKTLWEKSGHWENYADDMFKVETTDEEKEEYGLKPMNCPGHCLIFGKK  141 (460)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSCCEECCCCSEEEHHHHHHHTCTTTSGGGSCEECC------CEEECSCSHHHHHHHHTTS
T ss_pred             cHHHHHHHHHHHHHHHHHHhcCCEEEECCeeccHHHHHhcCCccccccceEEEecCCCCCceEEEcccCcHHHHHHHHhc
Confidence            45788899999999999 99999999999997643    1   11 223566543   257788885543     33332


Q ss_pred             hcc-CCC-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          309 SIC-GDF-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       309 li~-~g~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                      ... ..+ =|+|++|+|||+|.+.   +..-.-||+|.|.+. |.. -++..+.+++++..
T Consensus       142 ~~s~r~LPlrl~~~g~~fR~E~~~~~~GL~R~ReF~q~d~~~-f~~-~e~~~~e~~~~i~~  200 (460)
T 3uh0_A          142 DRSYNELPLRFSDFSPLHRNEASGALSGLTRLRKFHQDDGHI-FCT-PSQVKSEIFNSLKL  200 (460)
T ss_dssp             CCBGGGCSEEEEECCEEECCCCTTTCBTTTBCSEEEEEEEEE-EEC-GGGHHHHHHHHHHH
T ss_pred             cccccccCeEEEEecCeeeCCCCCCCCCceeeeeEEEeeEEE-EcC-HHHHHHHHHHHHHH
Confidence            221 122 3899999999999862   222346999999995 554 34444444444433

>3net_A Histidyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, structural genomics, PSI- nostoc, protein structure initiative; 2.70A {Nostoc SP}

Probab=97.88  E-value=1.2e-05  Score=83.85  Aligned_cols=119  Identities=17%  Similarity=0.214  Sum_probs=74.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C-CCCcc-eeeeccC----------------CCceeec--cC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S-EGGSA-VFRLDYK----------------GQSACLA--QS  301 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~-egga~-~F~~~~~----------------~~~~~L~--~S  301 (435)
                      .-.+++..|.+.+|+.|...||.||.||++-...    . +...+ .|++.--                |+.+.||  ..
T Consensus        24 ~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~~E~~~~~~~~G~~~ke~m~~~~d~~~~g~~~~~~~~~~~~g~~l~LRpd~T  103 (465)
T 3net_A           24 SEKRLELYLLDTIRRVYESYGFTPIETPAVERLEVLQAKGNQGDNIIYGLEPILPPNRQAEKDKSGDTGSEARALKFDQT  103 (465)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHGGGCC--CBEEEEEEEC----------------CCEEECSCSH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEeeccccccHHHHhccCCCCccceEEEecccccccccccccccCCCCCEEEeCCCCh
Confidence            4557788999999999999999999999984421    1 22233 6765322                5777777  22


Q ss_pred             hHH---HHhhhccCC-CceeEEEecceecCcCCCCccccchhhheeeecccccH-----HHHHHHHHHHHHHH
Q 013856          302 PQL---HKQMSICGD-FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY-----SEVMDIVDCLFVTI  365 (435)
Q Consensus       302 pql---~lq~li~~g-~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~-----~d~m~~~e~l~~~i  365 (435)
                      |.+   +.+...... --|.|+||||||.|.+. .-+.-||+|+++|.-..++.     -|++.++-+++..+
T Consensus       104 ~~~aR~~~~~~~~~~~p~r~~y~g~vfR~e~~~-~gr~Ref~Q~g~ei~G~~~~~a~~DaEvi~l~~~~l~~l  175 (465)
T 3net_A          104 VPLAAYIARHLNDLTFPFARYQMDVVFRGERAK-DGRFRQFRQCDIDVVGREKLSLLYDAQMPAIITEIFEAV  175 (465)
T ss_dssp             HHHHHHHHHHGGGSCSSEEEEECCEEECBC-------CCEEEEEEEEEECSSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccCCCeEEEEeccEEecCCCC-CCCcceeEEeeEEEECCCCccchhhHHHHHHHHHHHHHc
Confidence            222   333221112 24999999999999863 44678999999997654321     25677766666543

>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A

Probab=97.87  E-value=2.5e-05  Score=81.21  Aligned_cols=115  Identities=10%  Similarity=0.131  Sum_probs=77.0

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCCc-----ceeeeccCCCceeeccChHHHHhhhcc------
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGGS-----AVFRLDYKGQSACLAQSPQLHKQMSIC------  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egga-----~~F~~~~~~~~~~L~~Spql~lq~li~------  311 (435)
                      .-.+++..|.+.+++.+.+.||.||.||.|.....   .|..     +.|.+.  +.++||+-..+..+=.+..      
T Consensus       191 ~ga~l~~aL~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sG~~~~f~~emy~~~--d~~l~LrPt~e~~~~~~~~~~~~s~  268 (455)
T 2dq0_A          191 EIVILDLALIRFALDRLIEKGFTPVIPPYMVRRFVEEGSTSFEDFEDVIYKVE--DEDLYLIPTAEHPLAGMHANEILDG  268 (455)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEECHHHHHTTSCTTHHHHTCCBBT--TSSCEECSSTHHHHHHTTTTEEEET
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCcccCHHHHHhcCCCCCChHhhCeec--CCcEEEcCcCcHHHHHHHHhCccCc
Confidence            45677899999999999999999999999987541   1221     245443  5788998665443322221      


Q ss_pred             CCC-ceeEEEecceecCcCCC------CccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          312 GDF-GRVFETGPVFRAEDSYT------HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       312 ~g~-~rVfeIgp~FR~E~s~t------~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                      ..+ -|+|++|+|||+|.+..      ..-.-||+|.|++ .|.. -++..+..++++..
T Consensus       269 ~~LPlr~~~~g~~FR~E~~~~G~~~~GL~R~rqF~kvE~~-~f~~-pe~s~~~~~e~l~~  326 (455)
T 2dq0_A          269 KDLPLLYVGVSPCFRKEAGTAGKDTKGIFRVHQFHKVEQF-VYSR-PEESWEWHEKIIRN  326 (455)
T ss_dssp             TTCSEEEEEEEEEECCCTTCSSCSCCSSSSCSEEEEEEEE-EEEC-TTTHHHHHHHHHHH
T ss_pred             hhCCEEEEEecCcccCCCCccccccCCceeeeeeEeeeEE-EecC-HHHHHHHHHHHHHH
Confidence            123 39999999999998521      1133599999998 4554 35665555555543

>3rac_A Histidine-tRNA ligase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, PSI-BIO; 2.30A {Alicyclobacillus acidocaldarius subsp}

Probab=97.84  E-value=4.1e-05  Score=77.56  Aligned_cols=119  Identities=13%  Similarity=0.123  Sum_probs=75.2

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC---C-cceeee-ccCCCceeecc--ChHHHH---hhhc-c
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG---G-SAVFRL-DYKGQSACLAQ--SPQLHK---QMSI-C  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg---g-a~~F~~-~~~~~~~~L~~--Spql~l---q~li-~  311 (435)
                      .-.+++..|...+|+.|...||.||.||++.....   .|   . .+.|.+ +--|+.+.|+-  .|++..   ..+- .
T Consensus        35 ~~~~~~~~i~~~i~~~f~~~Gy~eI~tP~le~~el~~~~g~~~~~~~my~~~D~~g~~l~LRpd~T~~~aR~~~~~~~~~  114 (373)
T 3rac_A           35 DFAKRRRAVETRLLSFVEDAGYEPVTSGLFEYVDTLLRARSPESSRDWIRLFDGGGDAVALRPEMTPSIARMAAPRVAAG  114 (373)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHTTSCTTSCCCCCBCCCCSSSCEEECSSSHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeEEECCceeeHHHHhhcCCccchhceEEEECCCCCEEEECCcCHHHHHHHHHhccccC
Confidence            34577889999999999999999999999976431   11   2 345655 33456677762  222221   1111 1


Q ss_pred             CCCceeEEEecceecCcCC-----CCccccchhhheeeecccc-cH---HHHHHHHHHHHHH
Q 013856          312 GDFGRVFETGPVFRAEDSY-----THRHLCEFTGLDVEMEIKK-HY---SEVMDIVDCLFVT  364 (435)
Q Consensus       312 ~g~~rVfeIgp~FR~E~s~-----t~rHl~EFt~lE~e~a~~~-~~---~d~m~~~e~l~~~  364 (435)
                      ..--|.|+||+|||.|.+.     ..-+.-||+|+++|.-..+ ..   -+++.++.+++..
T Consensus       115 ~~P~r~~y~g~vfR~e~~g~~~~~~~gR~ReF~Q~g~ei~g~~d~~~aDaEvi~l~~~~l~~  176 (373)
T 3rac_A          115 RTPIRWCYCERVYRRTDDPASLSWASGKAAESTQVGIERIGEEASVDVDMDVLRLLHEASAA  176 (373)
T ss_dssp             CCCCEEEEEEEEEECC------------CEEEEEEEEEECSSCCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcceEccCCCcccccccCCccceeEEeeeEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            2246999999999999751     2346789999999986544 22   2566666666654

>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati translational regulation, protein/RNA, ligase-RNA complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A {Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1

Probab=97.83  E-value=3.2e-05  Score=83.75  Aligned_cols=110  Identities=19%  Similarity=0.199  Sum_probs=75.2

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC-----CcceeeeccCCCceeeccChH-----HHHhhhccC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG-----GSAVFRLDYKGQSACLAQSPQ-----LHKQMSICG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg-----ga~~F~~~~~~~~~~L~~Spq-----l~lq~li~~  312 (435)
                      .-.+++..|.+.+|+.+.+.||.||.||+|.....   -|     +-+.|.++--+..++|+--..     +|.+.....
T Consensus       269 ~g~~l~~~l~~~~r~~~~~~Gy~ev~tP~l~~~~l~~~sGh~~~~~~~my~~d~~~~~~~LrP~~~~~~~~~~~~~~~sy  348 (642)
T 1qf6_A          269 DGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSY  348 (642)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECCCCSEEETHHHHHHSHHHHHGGGCEEEEETTEEEEECSSSHHHHHHHHTTSCEEG
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEECCcCccHHHHhhcCccccccccceeeecCCceEEecCCCCHHHHHHHHhhhhhc
Confidence            55788999999999999999999999999987531   02     233566554567888885443     344332211


Q ss_pred             -CC-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHH
Q 013856          313 -DF-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDI  357 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~  357 (435)
                       .+ =|+|+||+|||+|.+.   +..-.-||||.|.+. |.+ -+++...
T Consensus       349 r~LPlr~~~~g~~fR~E~~g~~~GL~R~ReF~q~d~~~-f~~-~~~~~~e  396 (642)
T 1qf6_A          349 RDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHI-FCT-EEQIRDE  396 (642)
T ss_dssp             GGCSEEEEEEEEEECCCCGGGCBTTTBCSEEEEEEEEE-EEC-GGGHHHH
T ss_pred             cccCeEEEEeccEEecCCCccccCCceeeeEEEccEEE-EcC-HHHHHHH
Confidence             22 3999999999999861   211346999999997 554 3343333

>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase, ligase, structural G medical structural genomics of pathogenic protozoa; HET: HIS; 1.80A {Trypanosoma cruzi} PDB: 3hrk_A* 3hri_A

Probab=97.82  E-value=4.6e-05  Score=79.21  Aligned_cols=118  Identities=14%  Similarity=0.155  Sum_probs=75.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCCc----ceeee-ccCCCceeecc--ChHHHH---hhhccC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGGS----AVFRL-DYKGQSACLAQ--SPQLHK---QMSICG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egga----~~F~~-~~~~~~~~L~~--Spql~l---q~li~~  312 (435)
                      .-.+++..|...+|+.|...||.||.||++-....   ..|.    +.|.+ +--|+.+.|+-  .|.+..   +.....
T Consensus        41 ~~~~~~~~i~~~i~~~~~~~Gy~eI~tP~lE~~el~~~~~G~~~~~~my~f~D~~g~~l~LRpd~T~~~aR~~~~~~~~~  120 (456)
T 3lc0_A           41 EAMRCRRHLFDVFHATAKTFGFEEYDAPVLESEELYIRKAGEEITEQMFNFITKGGHRVALRPEMTPSLARLLLGKGRSL  120 (456)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEGGGGCCCSCCHHHHTCEEEECSSSCEEEECSCSHHHHHHHHHHSCTTC
T ss_pred             hHHHHHHHHHHHHHHHHHHCCCEEEECCcEeehhhhccccccchhhceEEEEcCCCCEEecCCcCHHHHHHHHHhcCccc
Confidence            34578899999999999999999999999977542   1132    25665 33567777762  222222   211111


Q ss_pred             C-CceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          313 D-FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       313 g-~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      . --|.|+||+|||.|.+. .-+.-||+|+++|.-..++.   -+++.++.+++..
T Consensus       121 ~~P~r~~y~g~vfR~e~~~-~gR~ReF~Q~g~ei~G~~~~~~DaEvi~l~~~~l~~  175 (456)
T 3lc0_A          121 LLPAKWYSIPQCWRYEAIT-RGRRREHYQWNMDIVGVKSVSAEVELVCAACWAMRS  175 (456)
T ss_dssp             CSSEEEEECCEEECCCC------CCEEEEEEEEEESCCSTHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeccEEecCCCC-CCCccceEEEEEEEEcCCChHhhHHHHHHHHHHHHH
Confidence            1 35899999999999863 34678999999998654321   2456655555554

>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP; 2.27A {Mus musculus} PDB: 3j1t_A 3j1u_A

Probab=97.80  E-value=0.0001  Score=78.10  Aligned_cols=117  Identities=11%  Similarity=0.134  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--------CCCcceeeeccCCCceeeccChHHHHhhhccC-----
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--------EGGSAVFRLDYKGQSACLAQSPQLHKQMSICG-----  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--------egga~~F~~~~~~~~~~L~~Spql~lq~li~~-----  312 (435)
                      .-.+++.+|++++|+.+.++||.||.||.|.....        ..+.+.|.+.  +.++||.-..+..+=.+...     
T Consensus       273 ~Ga~l~~aL~~~~~~~~~~~Gy~ev~~P~lv~~~l~~~sG~~~~f~e~mf~~~--~~~~~L~PT~E~~~~~l~~~~i~s~  350 (536)
T 3err_A          273 DLALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAIA--ETDLYLTGTAEVVLNALHSGEILPY  350 (536)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHTCTTTTGGGCCEET--TTTEEECSSTHHHHHHHTTTCEEEG
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeccccccHHHHHhcCCcccChhhceEec--CCCEEEccCCcHHHHHHHhcccccH
Confidence            56789999999999999999999999999987431        1234467764  36889986665443222211     


Q ss_pred             -CC-ceeEEEecceecCcCC------CCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          313 -DF-GRVFETGPVFRAEDSY------THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       313 -g~-~rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                       .+ =|+|++|+|||+|.+.      +.--.-||+|.|.+.--...+++..+..++++..
T Consensus       351 ~~LPlr~~~~~~~fR~E~gs~Gr~~~GL~RvrqF~k~e~~~f~~pe~e~s~~~~e~~~~~  410 (536)
T 3err_A          351 EALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLEN  410 (536)
T ss_dssp             GGCSEEEEEEEEEECCCTTCTTSSCSTTSSCSEEEEEEEEEEECSCHHHHHHHHHHHHHH
T ss_pred             hhCCeeEEEecccccCCccccCCCCCCceeeeeeEEEEEEEEECCchHHHHHHHHHHHHH
Confidence             12 3899999999999631      2234559999999853333223666666666543

>1nj1_A PROR, proline-tRNA synthetase, proline--tRNA ligase; protein-aminoacyladenylate complex class-II tRNA synthetase,; HET: 5CA; 2.55A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.51.1.1 d.68.5.1 d.104.1.1 PDB: 1nj2_A 1nj5_A* 1nj6_A*

Probab=97.79  E-value=3.7e-05  Score=80.83  Aligned_cols=116  Identities=18%  Similarity=0.165  Sum_probs=79.5

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC-CC--CC------cceeeeccC-----CCceeeccChH-----HHH
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-SE--GG------SAVFRLDYK-----GQSACLAQSPQ-----LHK  306 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~e--gg------a~~F~~~~~-----~~~~~L~~Spq-----l~l  306 (435)
                      .-.+++..|.+.+|+.|.. ||.||.||+|.... -.  .|      -+.|.+..-     +.+++|+--.+     +|.
T Consensus        69 ~g~~l~~~i~~~~~~~~~~-G~~ei~tP~l~~~~l~~~~sG~~~~f~~emy~~~d~g~~~~~~~l~LrPt~e~~i~~~~~  147 (501)
T 1nj1_A           69 HGFMIRKNTLKILRRILDR-DHEEVLFPLLVPEDELAKEAIHVKGFEDEVYWVTHGGLSKLQRKLALRPTSETVMYPMFA  147 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-TCEECCCCSEEEHHHHTTSHHHHHHTTTTCCEEEEETTEEEEEEEEECSSSHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHc-CCEEEecCcEecHHHHhcccCCcccCCcceEEEecCCCcccCCeeEEccCCCHHHHHHHH
Confidence            4567788899999999999 99999999998754 11  12      235666432     56789985543     445


Q ss_pred             hhhccC-CC-ceeEEEecceecCcCCCCc--cccchh-hheeeecccccHHHHHHHHHHHHH
Q 013856          307 QMSICG-DF-GRVFETGPVFRAEDSYTHR--HLCEFT-GLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       307 q~li~~-g~-~rVfeIgp~FR~E~s~t~r--Hl~EFt-~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      +..... .+ -|+|+||+|||+|.+.+.-  =.-||+ |+|.+..+.+ .++....+++++.
T Consensus       148 ~~~~s~~~LPlr~~q~g~~fR~E~~~~rGl~R~REF~~q~e~~~~~~~-~e~a~~e~~~~l~  208 (501)
T 1nj1_A          148 LWVRSHTDLPMRFYQVVNTFRYETKHTRPLIRVREITTFKEAHTIHAT-ASEAEEQVERAVE  208 (501)
T ss_dssp             HHCCBTTTCCEEEEEEEEEECCCCSCCBTTTBCSEEEEEEEEEEEESS-HHHHHHHHHHHHH
T ss_pred             hhhcccccCCEEEEeecCEeeCCCCCCCCCceeEEEeeeeeEEEEECC-HHHHHHHHHHHHH
Confidence            433322 33 3999999999999852211  234999 9999988875 5666555544443

>3l4g_A Phenylalanyl-tRNA synthetase alpha chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A {Homo sapiens}

Probab=97.76  E-value=4.7e-05  Score=79.81  Aligned_cols=50  Identities=22%  Similarity=0.375  Sum_probs=41.3

Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      -|+|+||+|||+|.. +.+|+|+|+|+|..+... -++.|+..+++.++..+
T Consensus       348 iriFeiGrVFR~d~~-DatHlpeFhQlegl~~~~~v~f~dLKg~Le~~l~~l  398 (508)
T 3l4g_A          348 VKYFSIDRVFRNETL-DATHLAEFHQIEGVVADHGLTLGHLMGVLREFFTKL  398 (508)
T ss_dssp             EEEEEEEEEECCSCC-CSSSCSEEEEEEEEEEEESCCHHHHHHHHHHHHHTT
T ss_pred             ceEEEEccEEecCCC-CCCcCCeEEEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            489999999999984 789999999999976532 14788888888887765

>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A*

Probab=97.75  E-value=4e-05  Score=80.03  Aligned_cols=118  Identities=11%  Similarity=0.179  Sum_probs=78.8

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C--C-----CcceeeeccCCCceeeccChHHHHhhhccC----
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E--G-----GSAVFRLDYKGQSACLAQSPQLHKQMSICG----  312 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e--g-----ga~~F~~~~~~~~~~L~~Spql~lq~li~~----  312 (435)
                      -.-.+++.+|++++++.+.++||.||.||.|..... +  |     +.+.|.+.--+.++||.-..+..+=.+...    
T Consensus       205 p~GarL~~aL~~f~~d~~~~~Gy~eV~~P~lv~~~l~~~sG~~~~f~e~mf~v~~~~~~~~L~PTaE~~l~~l~~~~i~s  284 (484)
T 3lss_A          205 GGLVQLQVALVSYSLDFLVKRGYTPFYPPFFLNRDVMGEVAQLSQFDEELYQVSGDGDKKYLIATSEMPIAAYHRGRWFT  284 (484)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEECCSEEEHHHHHHHSCHHHHHHTCCEEESSSSCEEECSSTHHHHHHHTTTCEES
T ss_pred             CHHHHHHHHHHHHHHHHHHHcCCEEEecCccccHHHHHhcCCcccccccceEeecCCcceEEeccCcHHHHHHHhccccc
Confidence            356799999999999999999999999999987542 1  1     123566643367899987766554222111    


Q ss_pred             --CC-ceeEEEecceecCc-CC-----CCccccchhhheeeecccccHHH--HHHHHHHHHHH
Q 013856          313 --DF-GRVFETGPVFRAED-SY-----THRHLCEFTGLDVEMEIKKHYSE--VMDIVDCLFVT  364 (435)
Q Consensus       313 --g~-~rVfeIgp~FR~E~-s~-----t~rHl~EFt~lE~e~a~~~~~~d--~m~~~e~l~~~  364 (435)
                        .+ =|+|++++|||+|. |.     +.--.-||+|.|.+. |+. -++  ..+..++|+..
T Consensus       285 y~dLPlr~~~~s~cFR~Eags~Grdt~GL~RvrqF~kvE~~~-f~~-pe~~~s~~e~e~~~~~  345 (484)
T 3lss_A          285 ELKEPLKYAGMSTCFRKEAGAHGRDTLGIFRVHQFDKIEQFV-VCS-PRQEESWRHLEDMITT  345 (484)
T ss_dssp             CCSSCEEEEEEEEEECCCTTCSSSCCSTTSSCSEEEEEEEEE-EEC-SSTTHHHHHHHHHHHH
T ss_pred             hhhCCeeEEeecCccCCCCCcCCcccCCcceeeeEEEEEEEE-EeC-cchHHHHHHHHHHHHH
Confidence              12 38999999999996 31     112234999999974 332 233  55555555443

>3a32_A Probable threonyl-tRNA synthetase 1; aeropyrum pernix K1, protein biosynthesis, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; 2.30A {Aeropyrum pernix} PDB: 3a31_A

Probab=97.69  E-value=6.1e-05  Score=78.48  Aligned_cols=102  Identities=20%  Similarity=0.237  Sum_probs=72.5

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC-----CcceeeeccCCCceeeccChH-----HHHhhhccC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG-----GSAVFRLDYKGQSACLAQSPQ-----LHKQMSICG  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg-----ga~~F~~~~~~~~~~L~~Spq-----l~lq~li~~  312 (435)
                      .-.+++..|.+.+|+.|...||.||.||+|.....   .|     +.+.|.++.-|..++|+--..     +|.+.+-..
T Consensus        47 ~g~~~~~~i~~~~~~~~~~~G~~ei~tP~l~~~~l~~~sg~~~~~~~emy~~d~~~~~l~LRP~~t~~i~~~~~~~~~s~  126 (471)
T 3a32_A           47 GGGPIRYALAEVLAKFHARRGYYVVETPIIASTELFKVSGHIEFYRNNMYLFDIEGHEFAVKPMNCPYHILLFLNEVAKH  126 (471)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCEECCCCSEEETHHHHHTCCCTTGGGGSEEEEETTEEEEECSCSHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEECCeeeehHHhhhccCccccccceEEEecCCcEEEEccccHHHHHHHHHhhhhhc
Confidence            45678899999999999999999999999987531   12     234677766678889984432     233322111


Q ss_pred             ----CC-ceeEEEecceecCcCC---CCccccchhhheeeecc
Q 013856          313 ----DF-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEI  347 (435)
Q Consensus       313 ----g~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~  347 (435)
                          .+ -|+|+||+|||+|.+.   +.--.-||+|+|.|.-.
T Consensus       127 r~~~~lP~rl~~~g~vfR~E~~~~~~Gl~R~REF~Q~~~e~f~  169 (471)
T 3a32_A          127 RSKLPLPFKVFEFGRVHRYEPSGSIYGLLRVRGFTQDDAHIIV  169 (471)
T ss_dssp             GGGSCSSEEEEEEEEEECCCCGGGCBTTTBCSEEEEEEEEEEE
T ss_pred             cccccCCeEEeeccceeccCCCcccccceeEEEEEECCeEEEc
Confidence                33 4999999999999752   11134699999999764

>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}

Probab=97.67  E-value=0.00014  Score=76.41  Aligned_cols=119  Identities=14%  Similarity=0.200  Sum_probs=79.9

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--------CCCc-ceeeeccC-CCceeeccChHHHHhhhccC---
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--------EGGS-AVFRLDYK-GQSACLAQSPQLHKQMSICG---  312 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--------egga-~~F~~~~~-~~~~~L~~Spql~lq~li~~---  312 (435)
                      .-.++..+|++++++.+.+.||.||.||.|.....        ..+. +.|.+.-- +.++||+-..+..+=.+...   
T Consensus       217 ~GarL~~aL~~~~~d~~~~~Gy~eV~~P~lv~~~l~~~sG~~~~f~e~emf~v~~~~~~~l~L~PTaE~~~~~l~~~~i~  296 (501)
T 1wle_A          217 AGALLQHGLVNFTLNKLIHRGFTPMTVPDLLRGVVFEGCGMTPNAKPSQIYNIDPSRFEDLNLAGTAEVGLAGYFMDHSV  296 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEECCSEECHHHHHHHTCCSSSSSCSSCBBCTTTSSSCEECSSHHHHHHHHHTTEEE
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHHhhcCCCccCccccEEEecCCCCeEEECCcCcHHHHHHHhhccC
Confidence            46788889999999999999999999999987431        1123 56766432 46889987666433222111   


Q ss_pred             ---CC-ceeEEEecceecCcC-----CCCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          313 ---DF-GRVFETGPVFRAEDS-----YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       313 ---g~-~rVfeIgp~FR~E~s-----~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                         .+ =|+|++|+|||+|-+     .+.--.-||+|.|.+.--....++..+..++|+..
T Consensus       297 s~~~LPlrl~~~s~~FR~Ea~~G~d~~GL~RvhqF~kvE~~~f~~pe~e~s~~~~e~~l~~  357 (501)
T 1wle_A          297 AFRDLPIRMVCSSTCYRAETDTGKEPWGLYRVHHFTKVEMFGVTGPGLEQSSELLEEFLSL  357 (501)
T ss_dssp             EGGGCSEEEEEEEEEECCCCSCC--CCSSSSCSEEEEEEEEEEECSSHHHHHHHHHHHHHH
T ss_pred             CcccCCeeEEeccCcccCCCCCCCCCcCceeeeeeeeeeEEEEeCCcHHHHHHHHHHHHHH
Confidence               12 389999999999965     11112358999999875443114666666666543

>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis, CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A* 3qo8_A* 3qo5_A

Probab=97.67  E-value=0.00011  Score=76.60  Aligned_cols=117  Identities=12%  Similarity=0.134  Sum_probs=79.1

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC-----CcceeeeccCCCceeeccChHHHHhhhccCC----
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG-----GSAVFRLDYKGQSACLAQSPQLHKQMSICGD----  313 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg-----ga~~F~~~~~~~~~~L~~Spql~lq~li~~g----  313 (435)
                      .-.+++.+|++++++.+.++||.||.||.|.....   .|     +.+.|.+.--+.++||.-..+.-+=.++..-    
T Consensus       183 ~GarL~~aL~~~~~d~~~~~Gy~eV~~P~lv~~~l~~~sG~l~~f~eemf~v~~~~~~~~LipTaE~pl~~l~~~ei~~S  262 (485)
T 3qne_A          183 YGVFLNQALINYGLSFLSSKGYVPLQAPVMMNKEVMAKTAQLSQFDEELYKVIDGEDEKYLIATSEQPISAYHAGEWFES  262 (485)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEEEECCSEEEHHHHHHHSCHHHHTTTCCEEEETTEEEEECSSTHHHHHHHTTTCEESS
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCCccccccceEEEeCCCCeEEEeccccHHHHHHHhcccccc
Confidence            56789999999999999999999999999987542   11     2345666433567888766554443332221    


Q ss_pred             ----C-ceeEEEecceecCcCC------CCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          314 ----F-GRVFETGPVFRAEDSY------THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       314 ----~-~rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                          + =|+|++++|||+|.+.      +.--.-||+|.|.+. |+. -++..+..++|+..
T Consensus       263 ~y~dLPlr~~~~s~cfR~Eag~~Grdt~GL~RvhqF~kvE~~~-f~~-pe~s~~e~e~ml~~  322 (485)
T 3qne_A          263 PAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRVHAFEKIEQFV-LTE-PEKSWEEFDRMIGC  322 (485)
T ss_dssp             HHHHCCEEEEEEEEEECSCCC-----CCSSSSCSEEEEEEEEE-EEC-GGGHHHHHHHHHHH
T ss_pred             chhcCCeeEEEecccccCCCCCCCccCCCceeeeeeeeeeEEE-EeC-HHHHHHHHHHHHHH
Confidence                1 2799999999999742      212234999999986 443 35566666655543

>3ial_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, prors, cysrs, RS, translation, ATP-binding, nucleotide-binding; HET: PR8; 2.20A {Giardia lamblia atcc 50803}

Probab=97.63  E-value=8.5e-05  Score=78.33  Aligned_cols=117  Identities=13%  Similarity=0.146  Sum_probs=82.1

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCC------cceeeeccC-----CCceeeccChH-----HHH
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGG------SAVFRLDYK-----GQSACLAQSPQ-----LHK  306 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egg------a~~F~~~~~-----~~~~~L~~Spq-----l~l  306 (435)
                      .-.+++..|.+.+|+.|.+.||.||.||+|.+...   ++|      .+.|.+..-     +.+++|+-..+     +|.
T Consensus        53 ~G~~i~~~L~~~~~~~~~~~Gy~eV~tP~l~~~el~~k~sgh~~~f~~emy~v~d~g~~~~~~~l~LrPt~e~~i~~~~~  132 (518)
T 3ial_A           53 YGFFMENAIMRLCEEEYAKVGISQILFPTVIPESFLKKESDHIKGFEAECFWVEKGGLQPLEERLALRPTSETAIYSMFS  132 (518)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHTSSHHHHHHHGGGCEEEEEETTEEEEEEEEECSSSHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEEcccccCHHHHHhhcCCcccccccEEEEecCCCcccCcceeECCCCcHHHHHHHH
Confidence            55688899999999999999999999999987541   222      235666432     46889985553     444


Q ss_pred             hhhcc-CCC-ceeEEEecceecCcCCC--CccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          307 QMSIC-GDF-GRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       307 q~li~-~g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      ..... ..+ =|+|++|+|||+|-+.+  .--.-||+|.|.+...++ .+++...++.++.
T Consensus       133 ~~i~SyrdLPlrl~q~~~~fR~E~~~~~GL~R~REF~q~e~h~f~~~-~e~a~~e~~~~l~  192 (518)
T 3ial_A          133 KWVRSYKDLPLKIHQTCTIFRHETKNTKPLIRVREIHWNEAHCCHAT-AEDAVSQLSDYWK  192 (518)
T ss_dssp             HHCCBGGGCCEEEEEEEEEECTTCCSCBTTTBCSEEEEEEEEEEESS-HHHHHHHHHHHHH
T ss_pred             hhhcccccCCeEEEEEeceecCCCCCCCCCceeeEEEEeeEEEEECC-HHHHHHHHHHHHH
Confidence            43322 133 38999999999994322  113469999999997665 6777776666653

>2cja_A Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE ATP; 2.2A {Methanosarcina barkeri} PDB: 2cim_A* 2cj9_A* 2cjb_A

Probab=97.61  E-value=0.00012  Score=77.19  Aligned_cols=115  Identities=18%  Similarity=0.224  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHHHHHH-HhhcCCeeeecCceeeecC----C---CC-Ccceeeec-----c--------------------
Q 013856          246 GIFRIQSQVGNIFRQ-FLLSENFVEIHTPKLIAGS----S---EG-GSAVFRLD-----Y--------------------  291 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~-fl~~~gF~EV~TP~l~~~~----~---eg-ga~~F~~~-----~--------------------  291 (435)
                      .-.+++..|.+.+++ ++...||.||.||+|.+..    +   ++ +-+.|.+.     .                    
T Consensus       229 ~G~~L~~~L~~~~~~e~~~~~G~~EV~tP~L~~~el~~~SGh~~~F~demy~v~~~~~Rd~~~~e~~~~~~~~~~~~~~~  308 (522)
T 2cja_A          229 QSARIFRTFEKIVLEELLEPLGYREMIFPKLVTWEVWMKSGHAKGVYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTK  308 (522)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHTCEECBCCSEEEHHHHHHHTGGGTCGGGCCEEECBSCCCHHHHHHHHHHHHHHSSCCHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHcCCEEEECCCcccHHHHhhcCCcCccccceeeeecCCccchhhhhhhhhhhhcccccccc
Confidence            456788899999996 6889999999999998743    1   11 12245552     0                    


Q ss_pred             ------CCCceeeccChHH-----HHhhhccC-CC-ceeEE-EecceecCcC--CCCccccchhhheeeecccccHHHHH
Q 013856          292 ------KGQSACLAQSPQL-----HKQMSICG-DF-GRVFE-TGPVFRAEDS--YTHRHLCEFTGLDVEMEIKKHYSEVM  355 (435)
Q Consensus       292 ------~~~~~~L~~Spql-----~lq~li~~-g~-~rVfe-Igp~FR~E~s--~t~rHl~EFt~lE~e~a~~~~~~d~m  355 (435)
                            -+..+||+-..+-     |....... .+ =|+|+ ||+|||+|..  +..--.-||+|.|++. |.+ -++..
T Consensus       309 ~~~~~~~~~~l~LrPt~e~~i~~~f~~~i~s~~~LPlrl~q~ig~~FR~Epgs~~GL~R~REF~q~E~~~-F~~-pe~s~  386 (522)
T 2cja_A          309 LIKEKIAEPIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYESGGIHGIERVDEFHRIEIVW-IGT-KEEVL  386 (522)
T ss_dssp             HHHHHBCCCCEEECSSSSGGGGGGTTTCEECGGGCSEEEEECSSEEECCCSSSCCCTTSCSEEEEEEEEE-EEE-HHHHH
T ss_pred             ccccccCCCcEEEccCCcHHHHHHHHhcccccccCCeeEEEEcCceEeCCCCCCCCCeEeEEEEEeeEEE-EeC-hHHHH
Confidence                  2467888854432     22221211 12 28999 9999999943  2223456999999998 664 67777


Q ss_pred             HHHHHHH
Q 013856          356 DIVDCLF  362 (435)
Q Consensus       356 ~~~e~l~  362 (435)
                      +..++++
T Consensus       387 ee~ee~i  393 (522)
T 2cja_A          387 KCAEELH  393 (522)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777777

>4g84_A Histidine--tRNA ligase, cytoplasmic; synthetase; 2.40A {Homo sapiens}

Probab=97.58  E-value=0.00019  Score=74.15  Aligned_cols=118  Identities=14%  Similarity=0.199  Sum_probs=73.5

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC--CC-CCc---ceeee-ccCCCceeecc--ChHHHHhhhccC--CC
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS--SE-GGS---AVFRL-DYKGQSACLAQ--SPQLHKQMSICG--DF  314 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~e-gga---~~F~~-~~~~~~~~L~~--Spql~lq~li~~--g~  314 (435)
                      .-.+++..|.+.+|+.|...||.||.||++....  .. .|.   +.|++ +--|+.+.|+-  .+.+-- ++...  .-
T Consensus        26 ~~~~~~~~i~~~~~~~~~~~Gy~eI~tP~le~~el~~~~~g~~~~~~y~f~D~~g~~l~LRPd~T~~~aR-~~~~~~~~p  104 (464)
T 4g84_A           26 RQMAVREKVFDVIIRCFKRHGAEVIDTPVFELKETLMGKYGEDSKLIYDLKDQGGELLSLRYDLTVPFAR-YLAMNKLTN  104 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHTTSCC----CCCBBCCCSSCCEEECSCSHHHHHH-HHHHTTCSC
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCeEEECcccCcHHHhccccCcCcceeEEEECCCCCEEEeCCcCcHHHHH-HHHhcCCCC
Confidence            4457889999999999999999999999996543  11 122   24544 33467777773  222221 11111  12


Q ss_pred             ceeEEEecceecCcCC-CCccccchhhheeeeccc-ccH---HHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSY-THRHLCEFTGLDVEMEIK-KHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~-t~rHl~EFt~lE~e~a~~-~~~---~d~m~~~e~l~~~  364 (435)
                      -|.|+||++||.|... ..-+.-||+|+++|.-.. +..   -++|.++-+++..
T Consensus       105 ~k~~y~g~vfR~erp~~~~gR~Ref~Q~g~ei~G~~~~~~aDaEvi~l~~~~l~~  159 (464)
T 4g84_A          105 IKRYHIAKVYRRDNPAMTRGRYREFYQCDFDIAGNFDPMIPDAECLKIMCEILSS  159 (464)
T ss_dssp             EEEEEEEEEECCCC------CCSEEEEEEEEEESCCSTTHHHHHHHHHHHHHHHH
T ss_pred             ceeEEEecceeccCCccccCccceeeecceeccCCccchhhHHHHHHHHHHHHHH
Confidence            4889999999999743 233567999999997542 111   2566666655553

>4g85_A Histidine-tRNA ligase, cytoplasmic; synthetase; 3.11A {Homo sapiens}

Probab=97.56  E-value=0.00017  Score=75.93  Aligned_cols=118  Identities=14%  Similarity=0.206  Sum_probs=72.2

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCCCcc---eeee-ccCCCceeecc--ChHHHHhhhccCC--C
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEGGSA---VFRL-DYKGQSACLAQ--SPQLHKQMSICGD--F  314 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~egga~---~F~~-~~~~~~~~L~~--Spql~lq~li~~g--~  314 (435)
                      .-.+++..|.+.+|+.|...||.||.||++....   ...|..   .|.+ +--|+.+.|+-  .+.+-- ++....  -
T Consensus        79 ~~~~~~~~ie~~i~~~~~~~Gy~eI~tP~lE~~el~~~~~ge~~~~my~f~D~~g~~l~LRPd~T~~~aR-~~~~~~~~p  157 (517)
T 4g85_A           79 RQMAVREKVFDVIIRCFKRHGAEVIDTPVFELKETLMGKYGEDSKLIYDLKDQGGELLSLRYDLTVPFAR-YLAMNKLTN  157 (517)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCEECBCCSEEEHHHHHCC------CSCBBCCTTSCCEEECSCSHHHHHH-HHHHTTCSC
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCeEEECcccCcHHHhhcccCcCcceeEEEECCCCCEEEeCCcCcHHHHH-HHHhCCCCC
Confidence            4567889999999999999999999999996532   111221   4543 23467777773  222211 011111  2


Q ss_pred             ceeEEEecceecCcCC-CCccccchhhheeeeccccc--H--HHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSY-THRHLCEFTGLDVEMEIKKH--Y--SEVMDIVDCLFVT  364 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~-t~rHl~EFt~lE~e~a~~~~--~--~d~m~~~e~l~~~  364 (435)
                      -|.|+||++||.|.+. ..-+.-||+|+++|.-...+  .  -+++.++-+++..
T Consensus       158 ~k~yyig~vfR~Erp~~~~GR~ReF~Q~g~ei~G~~~~~~aDaEvi~l~~~~l~~  212 (517)
T 4g85_A          158 IKRYHIAKVYRRDNPAMTRGRYREFYQCDFDIAGNFDPMIPDAECLKIMCEILSS  212 (517)
T ss_dssp             EEEEEEEEEECCCC-------CCEEEEEEEEEESCCCTTHHHHHHHHHHHHHHHH
T ss_pred             ceeEEEeceEeccCcccccCccceeeeeceeccCCccchHHHHHHHHHHHHHHHh
Confidence            4889999999999742 22256799999999765311  1  2566666665553

>1usy_A ATP phosphoribosyltransferase regulatory subunit; aminoacyl-tRNA synthetase; HET: HIS; 2.52A {Thermotoga maritima} SCOP: d.104.1.1 PDB: 1usy_C*

Probab=97.55  E-value=0.00014  Score=70.64  Aligned_cols=105  Identities=18%  Similarity=0.186  Sum_probs=67.6

Q ss_pred             HHHHHH--HHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeec--cChHHHHhhhccCC--CceeEEEecceecC
Q 013856          254 VGNIFR--QFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLA--QSPQLHKQMSICGD--FGRVFETGPVFRAE  327 (435)
Q Consensus       254 i~~~~R--~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~--~Spql~lq~li~~g--~~rVfeIgp~FR~E  327 (435)
                      |.+.+|  +.|...||.||.||++-....-.. +.| ++--|+.+.|+  ..|.+....+--..  --|.|++|+|||.|
T Consensus         6 le~~~r~~~~~~~~Gy~eI~tP~le~~~l~~~-d~f-~d~~g~~l~LRpd~T~~~a~~~~~~~~~~p~R~~y~g~vfR~e   83 (275)
T 1usy_A            6 FEKVFSFYSKATKKGFSPFFVPALEKAEEPAG-NFF-LDRKGNLFSIREDFTKTVLNHRKRYSPDSQIKVWYADFVYRYS   83 (275)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEEECSSCCS-SCE-EETTSCEEEECCCHHHHHHHHHTTCTTCCCEEEECCEEEEEEE
T ss_pred             HHHHHHHHHHHHHCCCEEecCccccchhhhcc-ccc-CCCCCCEEEeCCcChHHHHHHHhhcCCCCceEEEEeceEEecC
Confidence            344555  999999999999999976543222 234 34456777777  33343322221112  35999999999999


Q ss_pred             cCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          328 DSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       328 ~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      .+..    -||+|+++|.-..++.   -+++.++-+++..
T Consensus        84 ~~~~----Ref~Q~g~ei~g~~~~~~DaEvi~l~~~~l~~  119 (275)
T 1usy_A           84 GSDL----VAEYQLGLEKVPRNSLDDSLEVLEIIVESASE  119 (275)
T ss_dssp             TTEE----EEEEEEEEEEESCCSHHHHHHHHHHHHHHHHH
T ss_pred             CCCC----CeeeEeCEEEecCCCchhHHHHHHHHHHHHHH
Confidence            8633    7999999998665432   3455555555543

>4hvc_A Bifunctional glutamate/proline--tRNA ligase; ligase-ligase inhibitor complex; HET: ANP HFG; 2.00A {Homo sapiens}

Probab=97.53  E-value=0.00017  Score=76.04  Aligned_cols=117  Identities=12%  Similarity=0.052  Sum_probs=78.4

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCC-c-----ceeeeccC-----CCceeeccChH-----HHH
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGG-S-----AVFRLDYK-----GQSACLAQSPQ-----LHK  306 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egg-a-----~~F~~~~~-----~~~~~L~~Spq-----l~l  306 (435)
                      .-++++..|.+.+|+.+.+.||.||.||+|.....   +.| .     +.|.+..-     +.+++|+--.+     +|.
T Consensus        59 ~G~~i~~~L~~~~~~~~~~~Gy~ev~tP~l~~~~l~~k~sGh~~~f~~emy~~~d~g~~~l~e~l~LrPtse~~i~~~~~  138 (519)
T 4hvc_A           59 WAYAIWEAIKDFFDAEIKKLGVENCYFPMFVSQSALEKEKTHVADFAPEVAWVTRSGKTELAEPIAIRPTSETVMYPAYA  138 (519)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHTTSCCSCGGGGGGCEEEEEETTEEEEEEEEECSSSHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCEEEeccccccHHHHhcccCCcccccccceEEeccCCcccccceeeCCCCcHHHHHHHH
Confidence            45678899999999999999999999999976541   122 1     24544221     23588874432     455


Q ss_pred             hhhccC-CC-ceeEEEecceecCcCCCC--ccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          307 QMSICG-DF-GRVFETGPVFRAEDSYTH--RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       307 q~li~~-g~-~rVfeIgp~FR~E~s~t~--rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      +..... ++ =|+|++|+|||.|-+.++  -=.-||+|.|.+..|++ .++....++.++.
T Consensus       139 ~~i~SyrdLPlrl~q~g~~fR~E~~~~~Gl~R~ReF~q~e~h~~~~~-~e~a~~E~~~~l~  198 (519)
T 4hvc_A          139 KWVQSHRDLPIKLNQWCNVVRWEFKHPQPFLRTREFLWQEGHSAFAT-MEEAAEEVLQILD  198 (519)
T ss_dssp             HHCSSGGGCCEEEEEEEEEECCCCSCCBTTTBCSEEEEEEEEEEESS-HHHHHHHHHHHHH
T ss_pred             hhccccccCCeEEEEEcCeeeCCCCCCCCCcceeEEEEeeEEEEecC-HHHHHHHHHHHHH
Confidence            543221 23 389999999999953221  12359999999998876 6666666665543

>3mf2_A BLL0957 protein; aminoacyl-tRNA synthetase, seryl-tRNA synthetase, zinc ION, amino acid:[carrier protein] ligase; HET: AMP; 2.15A {Bradyrhizobium japonicum} PDB: 3mey_A* 3mf1_A* 3pzc_A*

Probab=97.18  E-value=0.00065  Score=67.77  Aligned_cols=119  Identities=13%  Similarity=0.053  Sum_probs=81.9

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-CC-C------cceeeeccC------------------------
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-EG-G------SAVFRLDYK------------------------  292 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-eg-g------a~~F~~~~~------------------------  292 (435)
                      ....+++..|.+++|+ ..+.||.||.||.|..... ++ |      -..|.+.-|                        
T Consensus        61 g~~a~L~~aLe~~~~~-~~~~Gy~ev~~P~lv~~~~~e~SGhl~~F~e~mf~v~~~~~d~~e~~~ll~~~~~~~~~~~~l  139 (346)
T 3mf2_A           61 ALYESIVERLAALITS-HREAGTEALRFPPVMSRAQLEKSGYLKSFPNLLGCVCGLHGTEREINAAVSRFDAGGDWTTSL  139 (346)
T ss_dssp             HHHHHHHHHHHHHHHH-TCCTTCEEEECCSEEEHHHHHHTTHHHHCGGGCEEEEEECSCHHHHHHHHHHHHTTSCGGGGE
T ss_pred             chHHHHHHHHHHHHHh-hHhcCCeEEECCCccCHHHHHhcCCcccChhhcceeecccccchhhhhhhhhhcccccccccc
Confidence            4566888899999999 8899999999999987542 11 1      124554322                        


Q ss_pred             -CCceeeccCh-----HHHHhh-hccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856          293 -GQSACLAQSP-----QLHKQM-SICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       293 -~~~~~L~~Sp-----ql~lq~-li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i  365 (435)
                       +.++||.-..     ++|... .+...=-|+-.+|+|||.|.|.+.-.+-+|+|.|+-. |. .-+++.+..++|+..+
T Consensus       140 ~~~d~~LiPtacvpl~~~~~~eg~i~~~plr~~~~g~CFR~EaS~GL~RvhqF~kvE~v~-~~-tpEqs~~e~e~l~~~a  217 (346)
T 3mf2_A          140 SPADLVLSPAACYPVYPIAASRGPLPKGGLRFDVAADCFRREPSKHLDRLQSFRMREYVC-IG-TPDDVSDFRERWMVRA  217 (346)
T ss_dssp             EEEEEEECSSSSTTHHHHHHTTCSCCTTCEEEEEEEEEECCCCCSSTTSCSEEEEEEEEE-EE-SHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEcccccHHHHHHHccCCcccccCeEEEEECCccCCcCCCCCeeeeeeEEEEEEE-Ee-CHHHHHHHHHHHHHHH
Confidence             2367777554     455532 2333334666799999999987777888999998754 33 3678878777777654


Q ss_pred             h
Q 013856          366 F  366 (435)
Q Consensus       366 ~  366 (435)
                      -
T Consensus       218 e  218 (346)
T 3mf2_A          218 Q  218 (346)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1ati_A Glycyl-tRNA synthetase; protein biosynthesis, ligase, aminoacyl-tRNA SYN; 2.75A {Thermus thermophilus} SCOP: c.51.1.1 d.104.1.1 PDB: 1b76_A* 1ggm_A*

Probab=97.08  E-value=0.00071  Score=71.13  Aligned_cols=34  Identities=3%  Similarity=0.030  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHHHHHHHhh--cCCeeeecCceeeecC
Q 013856          246 GIFRIQSQVGNIFRQFLL--SENFVEIHTPKLIAGS  279 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~--~~gF~EV~TP~l~~~~  279 (435)
                      .-.+++..|.+.+|+.+.  ..||.||.||+|....
T Consensus        37 ~G~~l~~~l~~~~r~~~~~~~~g~~ev~tP~l~~~~   72 (505)
T 1ati_A           37 LGVELKNNLKQAWWRRNVYERDDMEGLDASVLTHRL   72 (505)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCSSEEEEBCCSEEETT
T ss_pred             cHHHHHHHHHHHHHHHHHHhhCCcEEEEccccCCHH
Confidence            346788999999999999  8999999999998753

>2du7_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase, structural genomics, NPPSFA; 3.60A {Methanocaldococcus jannaschii}

Probab=96.94  E-value=0.0019  Score=68.15  Aligned_cols=50  Identities=14%  Similarity=0.237  Sum_probs=40.3

Q ss_pred             eeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      |+||||+|||.+...+.+|.+||.+++.-+... -++.|+...++.++..+
T Consensus       219 rlFEiGrVFr~D~~~d~th~~ef~qLaglv~G~~vdF~DLKG~Le~ll~~L  269 (549)
T 2du7_A          219 KLFSIDRCFRREQREDRSHLMSYHSASCVVVGEDVSVDDGKVVAEGLLAQF  269 (549)
T ss_dssp             EEEEEEEECCCCSSCSSSCCSCEEEEEEEEECTTCCHHHHHHHHHHHHGGG
T ss_pred             EEEEEeeEEecCCcccCcCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            899999999986531346999999999987764 14889999999888765

>3cmq_A Phenylalanyl-tRNA synthetase, mitochondrial; classii aarss fold, RRM domain, RNA recogntion, aminoacyl-tRNA synthetase, ATP-binding, ligase; HET: FA5; 2.20A {Homo sapiens} PDB: 3hfv_A* 3teg_A* 3tup_A

Probab=96.89  E-value=0.0022  Score=65.79  Aligned_cols=87  Identities=13%  Similarity=0.184  Sum_probs=56.2

Q ss_pred             HHHHHHHHhhcC--------CeeeecC-ceeeecC--------CCCC-cce-eeeccCCCceeecc--ChHHHHhhhccC
Q 013856          254 VGNIFRQFLLSE--------NFVEIHT-PKLIAGS--------SEGG-SAV-FRLDYKGQSACLAQ--SPQLHKQMSICG  312 (435)
Q Consensus       254 i~~~~R~fl~~~--------gF~EV~T-P~l~~~~--------~egg-a~~-F~~~~~~~~~~L~~--Spql~lq~li~~  312 (435)
                      +...||++|...        ||.|+.+ |.+.+..        ...+ |.. -.+-|++...-||.  ||-+..-  +..
T Consensus        53 ~~~~i~~~f~~~~~~~~g~~Gf~e~~~~~~v~s~~~NFd~L~~p~dHpaR~~~Dtfyi~~~~vLRThts~~~~~~--l~~  130 (415)
T 3cmq_A           53 IKERVKEHFYKQYVGRFGTPLFSVYDNLSPVVTTWQNFDSLLIPADHPSRKKGDNYYLNRTHMLRAHTSAHQWDL--LHA  130 (415)
T ss_dssp             HHHHHHHHHHHHHHHCSSSCCCEEECCCCSEEEHHHHTGGGTCCTTCGGGCGGGSCBSSSSEEECSSGGGGHHHH--HHT
T ss_pred             HHHHHHHHHHhhhccccCCCCcEEEcCCCccccHHHHHHHhCCCCCCCcccccceEEecCCeEEcCCCcHHHHHH--HHH
Confidence            345556666555        8999999 6665421        1111 111 11124566677874  4654443  345


Q ss_pred             CCceeEEEecceecCcCCCCccccchhhhee
Q 013856          313 DFGRVFETGPVFRAEDSYTHRHLCEFTGLDV  343 (435)
Q Consensus       313 g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~  343 (435)
                      +..|+|++|.|||.+.. +..|.|.|.++|-
T Consensus       131 ~~~k~~~~G~VyR~D~~-da~h~n~fhQ~eg  160 (415)
T 3cmq_A          131 GLDAFLVVGDVYRRDQI-DSQHYPIFHQLEA  160 (415)
T ss_dssp             TCSEEEEEEEEECCCCC-BTTBCSEEEEEEE
T ss_pred             CCCCEEEeeeEEeccch-hhhhhHHhcCCCc
Confidence            67799999999999974 7899999999984

>2du3_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase/RNA complex; HET: SEP; 2.60A {Archaeoglobus fulgidus} PDB: 2du4_A 2du5_A* 2du6_A*

Probab=96.80  E-value=0.002  Score=67.90  Aligned_cols=50  Identities=12%  Similarity=0.214  Sum_probs=40.9

Q ss_pred             eeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      |+||||+|||.+..-+..|.+||++++..+... .++.|+..+++.++..+
T Consensus       207 rLFEIG~VFr~d~~~d~th~~Ef~qLagli~G~~vdf~dLKgilE~LL~~L  257 (534)
T 2du3_A          207 KLFSIDRCFRREQGEDATRLYTYFSASCVLVDEELSVDDGKAVAEALLRQF  257 (534)
T ss_dssp             EEEEEEEEECCCTTCSSSCCSEEEEEEEEEECSSCCHHHHHHHHHHHHGGG
T ss_pred             eEEEEeeEEecCccccccccceeeEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            899999999986521557999999999988773 24889999999888765

>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP, aminoacyl-tRNA synthetase, ATP-binding, charcot-marie-tooth disease, disease mutation; HET: B4P; 2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A* 2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A

Probab=96.71  E-value=0.0017  Score=70.84  Aligned_cols=32  Identities=19%  Similarity=0.296  Sum_probs=28.2

Q ss_pred             hHHHHHHHHHHHHHHHhh-cCCeeeecCceeee
Q 013856          246 GIFRIQSQVGNIFRQFLL-SENFVEIHTPKLIA  277 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~-~~gF~EV~TP~l~~  277 (435)
                      .=.+++..|.+.+|+.|. ..||.||.||+|.+
T Consensus        99 ~G~~l~~~Ie~~~r~~~~~~~g~~EV~tP~l~~  131 (693)
T 2zt5_A           99 VGCALKNNIIQTWRQHFIQEEQILEIDCTMLTP  131 (693)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHTCEECCCCSEEE
T ss_pred             ChHHHHHHHHHHHHHHHHHhcCcEEEEeCCccc
Confidence            346788999999999998 56999999999986

>2k50_A Replication factor A related protein; uncharacterized protein, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str}

Probab=96.60  E-value=0.0077  Score=50.25  Aligned_cols=90  Identities=14%  Similarity=0.207  Sum_probs=64.0

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeee-------ccCC--CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCce
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTT-------RPVG--NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI  162 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~-------R~~G--~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esi  162 (435)
                      +..|.+|.   .|+.|.+.|+|.++       +..|  .++.++.|.|+++.|.+.+-....       .....+..|++
T Consensus         7 ~~~I~~L~---~g~~v~i~~~V~~~~~~~~~~~k~G~~~~~~~~~l~D~TG~I~~t~w~~~~-------~~~~~l~~G~v   76 (115)
T 2k50_A            7 MDTISKLE---EGAETPVTGRVMKISSPRTFTTRKGREGKLANVIIADDTGELRAVFWTENI-------KLLKKFREGDV   76 (115)
T ss_dssp             CCCTTTCC---TTCEEEEEEEEEEECCCEECCCTTSSCCEEEEEEEEETTEEEEEEEETTGG-------GGGGTCCTTSE
T ss_pred             eEEHHHCC---CCCEeEEEEEEEECCCceEEEcCCCCEEEEEEEEEEeCCCeEEEEEeCchh-------hhhhcCCCCCE
Confidence            34566665   48899999999998       2345  578999999999999999874311       12357999999


Q ss_pred             EEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       163 V~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      |.|.|.+....     -.|.++|.+.+...+.++
T Consensus        77 v~i~g~~v~~~-----f~g~~qL~~~~~~~i~~~  105 (115)
T 2k50_A           77 IRIKDVNIRGG-----FGGRKEAHLMPRSTVEVL  105 (115)
T ss_dssp             EEEEEEEECCC-----SSSSCEEEECTTCCEEEE
T ss_pred             EEEEeeEEccc-----cCCeEEEEECCCceEEEC
Confidence            99999885321     114578887765555544

>3ikl_A DNA polymerase subunit gamma-2, mitochondrial; transferase; HET: DNA; 3.10A {Homo sapiens}

Probab=96.55  E-value=0.0042  Score=64.38  Aligned_cols=106  Identities=10%  Similarity=0.076  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHH-HHHhhcCC-eeeecCceeeecCCCCCcceeeeccCCCceeecc--ChHHHHh---hhccC--CC-cee
Q 013856          248 FRIQSQVGNIF-RQFLLSEN-FVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQ--SPQLHKQ---MSICG--DF-GRV  317 (435)
Q Consensus       248 ~~~rs~i~~~~-R~fl~~~g-F~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~--Spql~lq---~li~~--g~-~rV  317 (435)
                      ..+|+.|.+.+ |.|...+| +.||.||+......-|+-+-|.       +||+-  +|-.+.-   .+...  .+ =|+
T Consensus       104 ~~l~~nl~~~w~~~~~~~~~~~~eV~tp~~~~~~~SGH~d~~~-------~~LRPeTaqg~~~nfk~~~~s~r~~LP~~i  176 (459)
T 3ikl_A          104 VELRKNLAAEWWTSVVVFREQVFPVDALHHKPGPLLPGDSAFR-------GGLRENLLHGALEHYVNCLDLVNKRLPYGL  176 (459)
T ss_dssp             HHHHHHHHHHHHHHHTTSSCSCEECCCCSBCCSCCCSSCSCCT-------TB-CSCSHHHHHHHTTTTTGGGTTBSSEEE
T ss_pred             HHHHHHHHHHHHHHHhhccCceEeeccccccccccCcchhhhc-------ceECCCCChhHHHHHhhhhhhccccCCeEE
Confidence            47889999845 44545466 7779999965433444444444       77875  3322221   11111  22 269


Q ss_pred             EEEecceecCcC-CCCcc----ccchhhheeeecccccHHHHHHHHHHHH
Q 013856          318 FETGPVFRAEDS-YTHRH----LCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       318 feIgp~FR~E~s-~t~rH----l~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                      .+||+|||+|.. .+.+|    .-|||+.|++. |.. -++..+..+.++
T Consensus       177 aqig~~FR~E~g~~~~~~GL~RvrEFtq~E~~~-F~~-Pe~~~e~~~~~~  224 (459)
T 3ikl_A          177 AQIGVCFHPVFDTKQIRNGVKSIGEKTEASLVW-FTP-PRTSNQWLDFWL  224 (459)
T ss_dssp             EEEEEEECCC----------CCCCEEEEEEEEE-EEC-GGGHHHHHHHHH
T ss_pred             EEEeeeeecccccccCCCCcccccceeeeeEEE-EeC-hhHHHHHHHHHH
Confidence            999999999941 13333    26999999873 332 334444444443

>3kf6_A Protein STN1; OB fold, chromosomal protein, DNA-binding, nucleus, telomere; 1.65A {Schizosaccharomyces pombe}

Probab=96.53  E-value=0.026  Score=50.34  Aligned_cols=80  Identities=15%  Similarity=0.157  Sum_probs=61.5

Q ss_pred             CEEEEEEEEeeeccCCCceEEEEEEeCCe-EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeE
Q 013856          105 QEVLIRGRVHTTRPVGNKLAFVVVRERVS-TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQV  183 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~-~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~l  183 (435)
                      +.|.|.|.|.+++... +-.+|.|.|++| .|.|++-.+..   ...-.....+..|++|.|.|.|..-       .++.
T Consensus        48 ~~V~IvGiVv~~~~~~-~~~~ytIDD~TG~~I~cv~w~~~~---~~~~~~~~~l~~G~~VrV~G~v~~f-------r~~r  116 (159)
T 3kf6_A           48 RWIQIVGYIAAIDIYE-GKHVLTVDDCSGMVLRVVFIIQDD---FSMSKRAISMSPGNVVCVFGKINSF-------RSEV  116 (159)
T ss_dssp             CEEEEEEEEEEEEEET-TEEEEEEECSSSCEEEEEEEGGGC---HHHHHHHTTCCTTCEEEEEEEEECS-------SSSC
T ss_pred             EEEEEEEEEEEEEEeC-CEEEEEEecCCCCeEEEEEEccCC---CCcccccccCCCCCEEEEEEEEEee-------CCEE
Confidence            5799999999999887 447789999988 69999986532   1111223468999999999999632       2568


Q ss_pred             EEEEeEEEEeec
Q 013856          184 EVQIKKLYCVSR  195 (435)
Q Consensus       184 EI~v~~i~vls~  195 (435)
                      +|.+.++.++..
T Consensus       117 qI~~~~i~~v~d  128 (159)
T 3kf6_A          117 ELIAQSFEELRD  128 (159)
T ss_dssp             EEEEEEEEEECS
T ss_pred             EEEEEEEEECCC
Confidence            999999999863

>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=96.51  E-value=0.0039  Score=66.54  Aligned_cols=51  Identities=16%  Similarity=0.254  Sum_probs=41.1

Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      -|+||||+|||++..-+.+|.+||.+++.-+... -++.|+...++.++..+
T Consensus       225 vRLFEIGrVFR~D~~lDath~~Ef~qLeGlv~G~~vdF~DLKGvLE~LL~~L  276 (648)
T 2odr_B          225 FKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (648)
T ss_dssp             EEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             eEEEEEeeEEecCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4899999999986521567999999999987763 14889999999998765

>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=96.48  E-value=0.0041  Score=66.47  Aligned_cols=51  Identities=16%  Similarity=0.254  Sum_probs=41.1

Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      -|+||||+|||++..-+.+|.+||.+++.-+... -++.|+...++.++..+
T Consensus       225 vRLFEIGrVFR~D~~lDath~~Ef~qLeGlv~G~~vdF~DLKGvLE~LL~~L  276 (665)
T 2odr_A          225 FKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (665)
T ss_dssp             EEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             eEEEEEeeEEecCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4899999999986521567999999999987763 14889999999998765

>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=96.46  E-value=0.0043  Score=66.45  Aligned_cols=51  Identities=16%  Similarity=0.254  Sum_probs=41.1

Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      -|+||||+|||++...+.+|.+||.+++.-+... -++.|+...++.++..+
T Consensus       225 vRLFEIGrVFR~D~~lDath~~Ef~qLeGlv~G~~vDF~DLKGvLE~LL~~L  276 (685)
T 2odr_D          225 FKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (685)
T ss_dssp             EEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             eEEEEeccEEecCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4899999999986521567999999999987763 14889999999998765

>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis}

Probab=96.36  E-value=0.0049  Score=66.13  Aligned_cols=51  Identities=16%  Similarity=0.254  Sum_probs=41.1

Q ss_pred             ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      -|+||||+|||++..-+.+|.+||.+++.-+... -++.|+...++.++..+
T Consensus       225 vRLFEIGrVFR~D~~lDath~~EfhqLeGlv~G~~vDF~DLKGvLE~LL~~L  276 (701)
T 2odr_C          225 FKLFSIDRCFRREQKEDKSHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQF  276 (701)
T ss_dssp             EEEEEEEEEECCCSCCCSSCCSEEEEEEEEEECTTCCHHHHHHHHHHHHHTT
T ss_pred             eEEEEEeeEEccCccccccCCCcceEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            4899999999986521567999999999987763 14889999999998765

>1ynx_A Replication factor-A protein 1; canonical OB fold, DNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=96.35  E-value=0.017  Score=48.41  Aligned_cols=97  Identities=16%  Similarity=0.136  Sum_probs=67.6

Q ss_pred             ceeEeccccCCCCCCEEEEEEEEeee---------ccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCc
Q 013856           91 EWTEVGALNGSLKDQEVLIRGRVHTT---------RPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNES  161 (435)
Q Consensus        91 ~~~~i~~l~~~~~g~~V~v~GrV~~~---------R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~es  161 (435)
                      .++.|.+|.+...  ..+|+|||.++         +..| ++.=++|.|..|.|+|++..      ...-+|...|..|+
T Consensus         3 ~~~~Is~L~p~~~--~w~I~~rV~~k~~~r~~~~~~~~g-~~~~~~L~De~G~I~at~~~------~~~~~f~~~l~eG~   73 (114)
T 1ynx_A            3 PIFAIEQLSPYQN--VWTIKARVSYKGEIKTWHNQRGDG-KLFNVNFLDTSGEIRATAFN------DFATKFNEILQEGK   73 (114)
T ss_dssp             CBCCGGGCCTTTC--CCEEEEEEEEEEEEEEEECSSCEE-EEEEEEEEETTEEEEEEECH------HHHHHHHHHSCSSS
T ss_pred             ceEEHHHCCCCCC--ceEEEEEEEEeccceEEecCCCCc-eEEEEEEECCCCeEEEEECH------HHHHHHHhhcccCc
Confidence            4567778876432  47888888853         2235 67778899999999999863      23345677899999


Q ss_pred             eEEEEEEEecC-CccCCCCceeEEEEEeEEEEeecC
Q 013856          162 IVDVIGVVSVP-DVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       162 iV~V~G~v~~~-~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      ++.|.|--.++ .+.-+...+.+||....-..+.+|
T Consensus        74 vy~Is~~~V~~a~~~y~~~~~~yei~f~~~T~I~~~  109 (114)
T 1ynx_A           74 VYYVSKAKLQPAKPQFTNLTHPYELNLDRDTVIEEC  109 (114)
T ss_dssp             EEEEESCEEEECCTTTSSSSSCEEEEECSSCEEEES
T ss_pred             EEEECCcEEEECCCCcccCCCCEEEEECCCCEEEEC
Confidence            99999854433 322333346799999877777776

>1g5h_A Mitochondrial DNA polymerase accessory subunit; intermolecular four helix bundle, DNA binding protein; 1.95A {Mus musculus} SCOP: c.51.1.1 d.104.1.1 PDB: 1g5i_A 2g4c_A* 3ikm_B*

Probab=96.19  E-value=0.0087  Score=62.04  Aligned_cols=116  Identities=9%  Similarity=0.038  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHHHHH-h-hcCCeeeecCceeeecCCCCC--------ccee---------------ee--ccCCCceeec
Q 013856          247 IFRIQSQVGNIFRQF-L-LSENFVEIHTPKLIAGSSEGG--------SAVF---------------RL--DYKGQSACLA  299 (435)
Q Consensus       247 i~~~rs~i~~~~R~f-l-~~~gF~EV~TP~l~~~~~egg--------a~~F---------------~~--~~~~~~~~L~  299 (435)
                      =..++..|.+++|+. + ...|+.||.||+|.+...-.+        ++-+               .+  .+++.++||+
T Consensus        61 G~~l~~~i~~~~~~~~~~~~~g~~ev~tp~l~~~~~~~~s~~g~~~r~d~~~e~~~~~g~~~eem~~~~~~~~~~~~~LR  140 (454)
T 1g5h_A           61 GVELRKNLASQWWSSMVVFREQVFAVDSLHQEPGSSQPRDSAFRLVSPESIREILQDREPSKEQLVAFLENLLKTSGKLR  140 (454)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCTTEEECCCCSEECCCCSSCCCCCEEECHHHHHHHHCC---CHHHHHHHHHHHHHHSCEEC
T ss_pred             HHHHHHHHHHHHHHHHhhhcCCeEEEEcCccCChhhccccccCcccHHHHHHHHhhccCCCHHHHHHHHHhhcCcceeec
Confidence            367889999988876 4 589999999999987542111        1111               11  2345567888


Q ss_pred             c--ChHH---HHhhhccC--CC-ceeEEEeccee---cCcCC--CCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          300 Q--SPQL---HKQMSICG--DF-GRVFETGPVFR---AEDSY--THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       300 ~--Spql---~lq~li~~--g~-~rVfeIgp~FR---~E~s~--t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                      -  +|-.   |+..+-..  .+ =++++||+|||   ||-+-  ...=.-||||.|++. |++ .++..+..+.++..
T Consensus       141 Peta~g~~~~f~~~~~s~r~~LP~~~aqig~~fR~~~nE~s~~~Gl~R~REF~q~E~~~-F~~-pe~~~e~~~~~~~~  216 (454)
T 1g5h_A          141 ATLLHGALEHYVNCLDLVNRKLPFGLAQIGVCFHPVSNSNQTPSSVTRVGEKTEASLVW-FTP-TRTSSQWLDFWLRH  216 (454)
T ss_dssp             SCSHHHHHHTHHHHHHHTTTBSCEEEEEEEEEEEEEC---------CEEEEEEEEEEEE-EEC-HHHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHhhhHhhcccCCCEEEEEeeeeccCCcccccCCCCccccCceehhheEE-EeC-HhhHHHHHHHHHHH
Confidence            4  2222   22222111  33 38999999999   69641  112357999999984 554 66666655555443

>3dm3_A Replication factor A; probably plays AN essential for replication of the chromosome, DNA recombination and repair; 2.40A {Methanocaldococcus jannaschii}

Probab=96.11  E-value=0.099  Score=43.17  Aligned_cols=88  Identities=15%  Similarity=0.195  Sum_probs=66.0

Q ss_pred             cceeEeccccCCCCCCEEEEEEEEeeec-------cCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh-cCCC
Q 013856           90 REWTEVGALNGSLKDQEVLIRGRVHTTR-------PVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR-SLSN  159 (435)
Q Consensus        90 ~~~~~i~~l~~~~~g~~V~v~GrV~~~R-------~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~-~l~~  159 (435)
                      .++.+|++|.+   |..|.|.|+|.++-       ..|+  ++.=+.|.|+++.|.+++=.+.          +. .+.+
T Consensus         3 ~~~~~I~dL~~---~~~v~v~g~V~~~~~~r~~~~~~G~~~~v~~~~l~D~TG~IrvtlW~~~----------a~~~l~~   69 (105)
T 3dm3_A            3 KDTYNIGELSP---GMTATFEGEVISALPIKEFKRADGSIGKLKSFIVRDETGSIRVTLWDNL----------TDIDVGR   69 (105)
T ss_dssp             -CEECGGGCCS---SEEEEEEEEEEEEEEEEEEECTTSCEEEEEEEEEEETTEEEEEEEEGGG----------GGSCCCT
T ss_pred             ccceEHHHCCC---CCeEEEEEEEEECCCceEEEcCCCCeeEEEEEEEECCCCcEEEEEECcc----------cccccCC
Confidence            35678888876   47899999998763       2342  4555888999999999875321          11 7999


Q ss_pred             CceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          160 ESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       160 esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      ||+|.|.|.++...      .+.+||++..-..+.+|
T Consensus        70 Gdvv~i~g~vk~~~------~g~~eL~~g~~~~i~~~  100 (105)
T 3dm3_A           70 GDYVRVRGYIREGY------YGGLECTANYVEILKKG  100 (105)
T ss_dssp             TCEEEEEEEEEECT------TSSEEEEEEEEEEEECC
T ss_pred             CCEEEEEEEEEEcc------CCCEEEEeCCceEEEec
Confidence            99999999886531      25799999999999888

>3kdf_D Replication protein A 32 kDa subunit; wheat GERM cell free, protein complex, center for eukaryotic structural genomics, PSI; HET: MSE; 1.98A {Homo sapiens} SCOP: b.40.4.3 PDB: 2pqa_A 1quq_A 1l1o_B

Probab=95.60  E-value=0.08  Score=45.30  Aligned_cols=79  Identities=14%  Similarity=0.147  Sum_probs=56.5

Q ss_pred             CEEEEEEEEeeeccCCCceEEEEEEeCCe-EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeE
Q 013856          105 QEVLIRGRVHTTRPVGNKLAFVVVRERVS-TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQV  183 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~-~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~l  183 (435)
                      ..|++-|+|.++......+. +.|.|++| .|.|..-...+..+    .-...+..|++|.|.|.++.-       .+..
T Consensus        32 ~~V~iVG~V~~~~~~~~~~~-~~ldD~TG~~I~~~~W~~~~~~~----~~~~~~~~g~yVrV~G~l~~f-------~g~~   99 (132)
T 3kdf_D           32 SQVTIVGIIRHAEKAPTNIV-YKIDDMTAAPMDVRQWVDTDDTS----SENTVVPPETYVKVAGHLRSF-------QNKK   99 (132)
T ss_dssp             CEEEEEEEEEEEEECSSEEE-EEEECSSSSCEEEEEEC-------------CCCCTTCEEEEEEEEEEE-------TTEE
T ss_pred             EEEEEEEEEEEEEEcCCeEE-EEEECCCCCEEEEEEEccCCCcc----cccccccCCCEEEEEEEEEeE-------CCEE
Confidence            46999999999998875644 68999999 99999865322111    123579999999999998642       1457


Q ss_pred             EEEEeEEEEeec
Q 013856          184 EVQIKKLYCVSR  195 (435)
Q Consensus       184 EI~v~~i~vls~  195 (435)
                      .|.+..|..+..
T Consensus       100 qi~~~~ir~v~d  111 (132)
T 3kdf_D          100 SLVAFKIMPLED  111 (132)
T ss_dssp             EEEEEEEEECSS
T ss_pred             EEEEEEEEEcCC
Confidence            788888877643

>3e0e_A Replication protein A; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 1.60A {Methanococcus maripaludis} PDB: 2k5v_A

Probab=95.49  E-value=0.2  Score=40.52  Aligned_cols=83  Identities=13%  Similarity=0.206  Sum_probs=59.2

Q ss_pred             EeccccCCCCCCEEEEEEEEeeec-------cCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh-cCCCCceE
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTR-------PVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR-SLSNESIV  163 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R-------~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~-~l~~esiV  163 (435)
                      +|++|.+   |..|.|.|+|.++-       ..|.  ++.=+.|.|++++|-+.+-.+.          +. .+..||+|
T Consensus         4 kI~dl~~---g~~v~i~~~V~~~~~~r~~~~~~G~~~~v~~~~l~DeTG~I~~tlW~~~----------~~~~i~~Gdvv   70 (97)
T 3e0e_A            4 KISELMP---NLSGTINAEVVTAYPKKEFSRKDGTKGQLKSLFLKDDTGSIRGTLWNEL----------ADFEVKKGDIA   70 (97)
T ss_dssp             CGGGCCT---TEEEEEEEEEEEECCCEEEC----CCEEEEEEEEEETTEEEEEEEEGGG----------GGCCCCTTCEE
T ss_pred             EHHHCCC---CCcEEEEEEEEECCCceEEEcCCCCeeEEEEEEEECCCCcEEEEEECCc----------cccccCCCCEE
Confidence            4666654   57899999998863       2342  4555788999999999976421          12 69999999


Q ss_pred             EEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          164 DVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       164 ~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      .|.|.+..-       .+.+||++.+.-.+.+|
T Consensus        71 ~i~g~v~~~-------~~~~el~~g~~~~i~k~   96 (97)
T 3e0e_A           71 EVSGYVKQG-------YSGLEISVDNIGIIEKS   96 (97)
T ss_dssp             EEEEEEEEC---------CEEEEEEEEEEEECC
T ss_pred             EEEEEEEEc-------CCeEEEEECCCcEEEEC
Confidence            999987542       24799999988777654

>1nnx_A Protein YGIW; structural genomics, hypothetical protein, OB-fold, structure 2 function project, S2F, unknown function; 1.45A {Escherichia coli} SCOP: b.40.10.1

Probab=95.39  E-value=0.058  Score=45.05  Aligned_cols=81  Identities=20%  Similarity=0.247  Sum_probs=59.2

Q ss_pred             EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEecC
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~~  172 (435)
                      .+.+......+..|+|.|.|...-..- +   |.+||++++|++-++..         .|. ..+++++-|.|.|.|-+.
T Consensus        27 TV~~a~~~~Dd~~V~L~G~Iv~~~~~d-~---Y~F~D~TG~I~VeId~~---------~w~g~~v~p~~~Vri~GevDkd   93 (109)
T 1nnx_A           27 TVESAKSLRDDTWVTLRGNIVERISDD-L---YVFKDASGTINVDIDHK---------RWNGVTVTPKDTVEIQGEVDKD   93 (109)
T ss_dssp             CHHHHTTSCSSEEEEEEEEEEEEEETT-E---EEEEETTEEEEEECCGG---------GSTTCCCCTTSCEEEEEEEEEE
T ss_pred             eHHHHhhCcCCCeEEEEEEEEEEeCCC-e---EEEECCCccEEEEEChh---------hcCCcccCCCCEEEEEEEECCC
Confidence            344444556789999999998754322 3   78999999999998743         133 358999999999999742


Q ss_pred             CccCCCCceeEEEEEeEEEEee
Q 013856          173 DVEIKGATQQVEVQIKKLYCVS  194 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls  194 (435)
                      -       ...||.|..|.+|.
T Consensus        94 ~-------~~~eIdV~~i~~~~  108 (109)
T 1nnx_A           94 W-------NSVEIDVKQIRKVN  108 (109)
T ss_dssp             T-------TEEEEEEEEEEEC-
T ss_pred             C-------CceEEEEEEEEEcc
Confidence            2       24689999998874

>3au7_A TIAS, putative uncharacterized protein; ATP hydrolysis, RNA binding protein; 2.60A {Archaeoglobus fulgidus} PDB: 3amt_A* 3amu_A*

Probab=95.29  E-value=0.16  Score=51.50  Aligned_cols=80  Identities=23%  Similarity=0.359  Sum_probs=64.1

Q ss_pred             CCCCCEEEEEEEEeee--ccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCC
Q 013856          101 SLKDQEVLIRGRVHTT--RPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG  178 (435)
Q Consensus       101 ~~~g~~V~v~GrV~~~--R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~  178 (435)
                      -.....++|+|.|.+.  +..| .=+|+.|.|+++.|.|++-..    ++.+-+.+..|.+||.|.|.|-++.       
T Consensus       281 ~~~~~~~~v~G~V~~~P~~~~G-GHV~f~l~d~~~~i~c~ayep----tk~fr~~vr~L~~GD~V~v~G~v~~-------  348 (402)
T 3au7_A          281 LENYRSYRLRGRVTLEPYDIEG-GHVFFEIDTKFGSVKCAAFEP----TKQFRNVIRLLRKGDVVEVYGSMKK-------  348 (402)
T ss_dssp             CCTTCEEEEEEEEEEEEEEETT-TEEEEEEEETTEEEEEEECGG----GTTHHHHHTTCCTTCEEEEEEEEET-------
T ss_pred             cccCceEEEEEEEecCcEeccC-ceEEEEEEcCCCEEEEEEEcc----chHHHHHHhcCCCCCEEEEEEeecC-------
Confidence            3456899999999987  4455 447899999999999999753    3455667789999999999998753       


Q ss_pred             CceeEEEEEeEEEEeecC
Q 013856          179 ATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       179 ~t~~lEI~v~~i~vls~~  196 (435)
                        +  .|.++++.+++-+
T Consensus       349 --g--tLnvEk~~v~~l~  362 (402)
T 3au7_A          349 --D--TINLEKIQIVELA  362 (402)
T ss_dssp             --T--EEEEEEEEEEECC
T ss_pred             --C--EEEEEEEEEcccC
Confidence              2  6999999999764

>3ig2_A Phenylalanyl-tRNA synthetase beta chain; phers, MCSG, structural genomics, midwest center for structural GE protein structure initiative; HET: MSE; 2.09A {Bacteroides fragilis}

Probab=95.00  E-value=0.077  Score=49.13  Aligned_cols=114  Identities=18%  Similarity=0.204  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCC-C-----CCcceeee-ccCC-CceeeccChHHHHhhhccC----CCc--ee
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSS-E-----GGSAVFRL-DYKG-QSACLAQSPQLHKQMSICG----DFG--RV  317 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e-----gga~~F~~-~~~~-~~~~L~~Spql~lq~li~~----g~~--rV  317 (435)
                      ..+.+.+|+.|...||.||-|-.+++... +     .......+ |-.. .--.||+|-=--+=..+.-    +..  |+
T Consensus         7 ~~~~~~ir~~l~~~G~~Evitysf~~~~~~~~~~~~~~~~~v~l~NPls~e~~vmRtsLlpgLL~~~~~N~~r~~~~v~l   86 (213)
T 3ig2_A            7 NKLQNLVAEQLVGCGFNEILNNSLTRAAYYDGLESYPSKNLVMLLNPLSADLNCMRQTLLFGGLESIAHNANRKNADLKF   86 (213)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEECGGGGTTCSSSCGGGCEEBSSGGGCSCCEECSCSHHHHHHHHHHC------CCEE
T ss_pred             HHHHHHHHHHHHHCCCeEEeccccCCHHHHHhhcccCcCCeEEEeCCcchhHHHHHHHhHHHHHHHHHHHhcCCCCCeeE
Confidence            35678899999999999999999987431 1     11223333 2222 3347887743322223322    232  89


Q ss_pred             EEEecceecCcCCC-----Cccccchhhheeeeccc------------ccHHHHHHHHHHHHHHH
Q 013856          318 FETGPVFRAEDSYT-----HRHLCEFTGLDVEMEIK------------KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       318 feIgp~FR~E~s~t-----~rHl~EFt~lE~e~a~~------------~~~~d~m~~~e~l~~~i  365 (435)
                      ||||+||+.++...     ..+..|..+|-.-+...            -++.|+...+|.++..+
T Consensus        87 FEiG~Vf~~~~~~~~~~~~~~~~~e~~~la~~~~G~~~~~~w~~~~~~~df~dlKg~ve~ll~~l  151 (213)
T 3ig2_A           87 FEFGNCYHFDAEKKNPEKVLAPYSEDYHLGLWVTGKMVSNSWAHADENTSVYELKAYVENIFKRL  151 (213)
T ss_dssp             EEEEEEEEECC----------CEEEEEEEEEEEEEEECCSCC----CHHHHHHHHHHHHHHHHHT
T ss_pred             EEeeeEEecCcccccccccccccchhHEEEEEEECCCccccCCCCCCCcCHHHHHHHHHHHHHHh
Confidence            99999999765211     12345777777655441            13667777777776554

>3l4g_B Phenylalanyl-tRNA synthetase beta chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A {Homo sapiens}

Probab=94.98  E-value=0.057  Score=57.66  Aligned_cols=112  Identities=12%  Similarity=0.112  Sum_probs=70.5

Q ss_pred             HHHHHHHHHhhcCCeeeecCceeeecC--------CCCCcceeee-ccCCC-ceeeccChHHHHhhhccC----C-Ccee
Q 013856          253 QVGNIFRQFLLSENFVEIHTPKLIAGS--------SEGGSAVFRL-DYKGQ-SACLAQSPQLHKQMSICG----D-FGRV  317 (435)
Q Consensus       253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~--------~egga~~F~~-~~~~~-~~~L~~Spql~lq~li~~----g-~~rV  317 (435)
                      .+.+.+|+.|...||.||.|+.+++..        ..++...+.+ |-... --.||+|-=--+=..+..    + -=|+
T Consensus       395 ~~~~~ir~~l~~~Gf~Evitysf~s~~~~~~~l~~~~~~~~~v~L~NPis~e~svmRtsLlpgLL~~l~~N~~~~~~vrl  474 (589)
T 3l4g_B          395 KLTELLRHDMAAAGFTEALTFALCSQEDIADKLGVDISATKAVHISNPKTAEFQVARTTLLPGLLKTIAANRKMPLPLKL  474 (589)
T ss_dssp             HHHHHHHHHHHHTTCEECCCCSEECHHHHTGGGTSCTTSSCCCBBSSCSSGGGSEECSCSHHHHHHHHHHTTTSCSCEEE
T ss_pred             HHHHHHHHHHHHCCCEEEecCcccCHHHHHHHhCCCCCCCCeEEEcCCCchhHhHHHHHHHHHHHHHHHHHhcCCCceEE
Confidence            457789999999999999999998642        1122234444 22222 246776632222112221    1 2389


Q ss_pred             EEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856          318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i  365 (435)
                      ||+|+|||.+.. +.+|.+|+.++..-+... .++.++--.++.++..+
T Consensus       475 FEiG~Vf~~d~~-~~~~~~e~~~la~~~~g~~~~f~~lkg~le~ll~~l  522 (589)
T 3l4g_B          475 FEISDIVIKDSN-TDVGAKNYRHLCAVYYNKNPGFEIIHGLLDRIMQLL  522 (589)
T ss_dssp             EEEEEEEEECTT-STTSEEEEEEEEEEEESSSCCHHHHHHHHHHHHHHT
T ss_pred             EEeeeEEecCCc-cccCCccccEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence            999999998763 457888999998765432 23667766666665543

>4gop_B Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=94.84  E-value=0.19  Score=43.13  Aligned_cols=79  Identities=11%  Similarity=0.098  Sum_probs=56.3

Q ss_pred             CEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856          105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE  184 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE  184 (435)
                      ..|++-|+|.+++.....+. +.|.|++|.|.|..=...+..   ...-...+..|++|.|.|.+..-       .+...
T Consensus        37 ~~V~iVG~V~~~~~~~~~~~-~~ldD~TG~I~~~~W~~~~~~---~~~~~~~~~~g~yVrV~G~v~~f-------~g~~q  105 (136)
T 4gop_B           37 GQLTFVAVVRNISRNATNVA-YSVEDGTGQIEVRQWLDSSSD---DSSKASEIRNNVYVRVLGTLKSF-------QNRRS  105 (136)
T ss_dssp             CEEEEEEEEEEEEECSSEEE-EEEECSSCEEEEEEECC-----------CCSCCTTCEEEEEEEEEEE-------TTEEE
T ss_pred             EEEEEEEEEEEEEecCCeEE-EEEECCCCCEEEEEecccCCc---ccccccccCCCCEEEEEEEEEEe-------CCEEE
Confidence            47999999999998775544 688999999999876432210   01124579999999999998642       14577


Q ss_pred             EEEeEEEEee
Q 013856          185 VQIKKLYCVS  194 (435)
Q Consensus       185 I~v~~i~vls  194 (435)
                      |.+..|..+.
T Consensus       106 i~~~~ir~v~  115 (136)
T 4gop_B          106 ISSGHMRPVI  115 (136)
T ss_dssp             EEESEEEECS
T ss_pred             EEEEEEEECC
Confidence            8888887764

>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer, phenylalanine, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus haemolyticus} PDB: 2rhs_B*

Probab=94.79  E-value=0.07  Score=58.99  Aligned_cols=112  Identities=16%  Similarity=0.068  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCCC----CCcc-eeee-ccCC-CceeeccChHHHHhhhccC----CC--ceeE
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSE----GGSA-VFRL-DYKG-QSACLAQSPQLHKQMSICG----DF--GRVF  318 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~e----gga~-~F~~-~~~~-~~~~L~~Spql~lq~li~~----g~--~rVf  318 (435)
                      ..+.+.+|++|...||.|+.|..+++....    +... .+.+ |... ....||+|-=--+=..+..    +.  =|+|
T Consensus       496 ~~~~~~ir~~L~~~Gf~Evitysfvs~~~~~~l~~~~~~~v~L~NPis~e~svLRtsLlpgLL~~l~~N~~r~~~~vrlF  575 (795)
T 2rhq_B          496 QHKTRTLKETLEGAGLNQAITYSLVSKDHAKDFALQERPTISLLMPMSEAHATLRQSLLPHLIEATAYNVARKNKDVRLY  575 (795)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEECTTTTTTTCSSCCCCEECSSCSCTTSSEECSCSHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             HHHHHHHHHHHHHCCCEEEecCCccCHHHHHhhCCCCCceEEEcCCCchhhhhhhhccHHHHHHHHHHHhcCCCCCeEEE
Confidence            456778999999999999999999865311    1223 2444 2222 2346775542222222221    22  3899


Q ss_pred             EEecceecCcCCCCccccchhhheeeeccc------------ccHHHHHHHHHHHHHHH
Q 013856          319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIK------------KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~------------~~~~d~m~~~e~l~~~i  365 (435)
                      |||+|||.+.. +..| +||.++..-+...            -++.|+...++.++..+
T Consensus       576 EiG~Vf~~d~~-~~~~-~e~~~la~l~~G~~~~~~w~~~~~~~dF~dlKg~le~ll~~l  632 (795)
T 2rhq_B          576 EIGRVFFGNGE-GELP-DEVEYLSGILTGEYVVNAWQGKKEEIDFFIAKGVVDRVAEKL  632 (795)
T ss_dssp             EEEEEEECCCT-TSCC-EEEEEEEEEEESEEEEEGGGTEEEECCHHHHHHHHHHHHHHH
T ss_pred             EEeeEEecCCc-ccCc-chhhEEEEEEEeccccccccCCCCCCCHHHHHHHHHHHHHHc
Confidence            99999997542 2256 8999998755542            24889999999998865

>1o7i_A SSB, SSO2364, single stranded DNA binding protein; OB fold; 1.2A {Sulfolobus solfataricus} SCOP: b.40.4.3

Probab=93.70  E-value=0.42  Score=39.92  Aligned_cols=85  Identities=19%  Similarity=0.187  Sum_probs=59.5

Q ss_pred             eEeccccCCCCCCEEEEEEEEeee---c----cCCC-ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTT---R----PVGN-KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD  164 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~---R----~~G~-kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~  164 (435)
                      ..|.+|.+  ....|.+.|+|.++   |    +.|+ ...=+.|.|.+++|.+.+=...          +..+..|++|.
T Consensus         3 ~~I~dL~~--~~~~v~~~~~V~~~~~~~~~~~k~G~~~~~~~~l~D~TG~I~~tlW~~~----------~~~~~~G~vv~   70 (119)
T 1o7i_A            3 EKVGNLKP--NMESVNVTVRVLEASEARQIQTKNGVRTISEAIVGDETGRVKLTLWGKH----------AGSIKEGQVVK   70 (119)
T ss_dssp             CCGGGCCT--TCSSEEEEEEEEEECCCEEECCTTCCEEEEEEEEEETTEEEEEEEEGGG----------TTCCCTTCEEE
T ss_pred             EEHHHCcC--CCCcEEEEEEEEECCCCeeEEecCCCEEEEEEEEEeCCCEEEEEEECCh----------hhcCCCCCEEE
Confidence            45667754  12368999999876   4    3453 5666788899999999886431          13589999999


Q ss_pred             EE-EEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          165 VI-GVVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       165 V~-G~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      |. |.+..-       .|.++|.+.+...+.++
T Consensus        71 i~~g~v~~~-------~g~~qL~i~~~~~i~~~   96 (119)
T 1o7i_A           71 IENAWTTAF-------KGQVQLNAGSKTKIAEA   96 (119)
T ss_dssp             EEEEEEEEE-------TTEEEEEECTTCEEEEC
T ss_pred             EEeEEEEEe-------CCEEEEEECCCEEEEEc
Confidence            99 776531       24689999886655555

>3ica_A Phenylalanyl-tRNA synthetase beta chain; APC61692.1, phenylalanyl-tRNA SYNT beta subunit, structural genomics, PSI-2; HET: TAM; 2.44A {Porphyromonas gingivalis}

Probab=93.57  E-value=0.19  Score=46.47  Aligned_cols=114  Identities=18%  Similarity=0.191  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHhhcCCeeeecCceeeecCC-C-----CCcceeee-ccCC-CceeeccChHHHHhhhc----cCCCc--ee
Q 013856          252 SQVGNIFRQFLLSENFVEIHTPKLIAGSS-E-----GGSAVFRL-DYKG-QSACLAQSPQLHKQMSI----CGDFG--RV  317 (435)
Q Consensus       252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e-----gga~~F~~-~~~~-~~~~L~~Spql~lq~li----~~g~~--rV  317 (435)
                      ..+.+.+|+.|...||.||-|-.+++... +     .......+ |-.. .--.||+|-=--+=..+    .-+..  |+
T Consensus         7 ~~~~~~ir~~L~~~G~~Evitysf~s~~~~~~~~~~~~~~~v~l~NPls~e~~vmRtsLlpgLL~~~~~N~~r~~~~~~l   86 (213)
T 3ica_A            7 YKWQTVVSEQLVGAGFNEILNNSLTAGSYYEGLKSHPREMAVELMNPLSQELNCMRQTLLFGGLETLSHNLRRKHLSLYL   86 (213)
T ss_dssp             HHHHHHHHHHHHHTTCEECCCCSEEEGGGGTTCSSSCGGGCCBCSSBSCSSEEEECSSSHHHHHHHHHHHHTTTCSEEEE
T ss_pred             HHHHHHHHHHHHHCCCceeeeccCCCHHHHhhhcccCcCCeEEecCCccHHHHHHHHHhHHHHHHHHHHHHcCCCCCeeE
Confidence            35678899999999999999999987531 1     11122333 3333 34578877433222122    23443  89


Q ss_pred             EEEecceecCcCC-----CCccccchhhheeeeccc------------ccHHHHHHHHHHHHHHH
Q 013856          318 FETGPVFRAEDSY-----THRHLCEFTGLDVEMEIK------------KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       318 feIgp~FR~E~s~-----t~rHl~EFt~lE~e~a~~------------~~~~d~m~~~e~l~~~i  365 (435)
                      ||||+||+.++..     ...+..|..+|-.-+...            .++.|+...+|.++..+
T Consensus        87 FEiG~Vf~~~~~~~~~~~~~~~~~e~~~la~~~~G~~~~~~w~~~~~~~df~d~Kg~ve~ll~~l  151 (213)
T 3ica_A           87 FEWGKCYRFHAAKRTDETPLAAYAEDDRLGIWICGQRVHNSWAHPEEPTSVFELKAVVEQVLCRV  151 (213)
T ss_dssp             EEEEEEEEEECCCC--CCSSCEEEEEEEEEEEEEEBCCC-----CCCBCCHHHHHHHHHHHHHHT
T ss_pred             EEeeeEEecCCccccccccccccchhhEEEEEEeCCCCcccCCCCCCCcCHHHHHHHHHHHHHHh
Confidence            9999999975421     113456777776655441            24788888888877654

>1jmc_A Protein (replication protein A (RPA)); human ssDNA binding replication protein A(RPA), single stranded DNA-binding protein, protein-ssDNA complex; HET: DNA; 2.40A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 1fgu_A

Probab=93.32  E-value=0.25  Score=46.30  Aligned_cols=98  Identities=12%  Similarity=0.096  Sum_probs=66.9

Q ss_pred             cceeEeccccCCCCCCEEEEEEEEeee---c------cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCC
Q 013856           90 REWTEVGALNGSLKDQEVLIRGRVHTT---R------PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNE  160 (435)
Q Consensus        90 ~~~~~i~~l~~~~~g~~V~v~GrV~~~---R------~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~e  160 (435)
                      ..++.|.+|.+..  ..++|+|||.++   |      ..| ++.-++|.|..|.|++++...      ..-+|...|..|
T Consensus         6 ~~~~~I~~L~p~~--~~w~I~~rV~~k~~~r~~~~~~~~g-~~~~~~L~De~G~I~at~~~~------~~~~~~~~l~~G   76 (246)
T 1jmc_A            6 SKVVPIASLTPYQ--SKWTICARVTNKSQIRTWSNSRGEG-KLFSLELVDESGEIRATAFNE------QVDKFFPLIEVN   76 (246)
T ss_dssp             -CBCCGGGCCTTC--CCCEEEEEEEEECCCEEEECSSCEE-EEEEEEEECSSCEEEEEEEHH------HHHHHGGGCCTT
T ss_pred             cceEEHHHCCCCC--CceEEEEEEEEecccceeeCCCCCc-eEEEEEEECCCCeEEEEEChH------HHHHhhhhcccC
Confidence            4567888887643  357899999865   2      234 566678999988999998742      233566789999


Q ss_pred             ceEEEEEEEecCC-ccCCCCceeEEEEEeEEEEeecC
Q 013856          161 SIVDVIGVVSVPD-VEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       161 siV~V~G~v~~~~-~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      +++.|.+...++. ..-+...+.+||....-..+.+|
T Consensus        77 ~vy~i~~~~v~~~~~~y~~~~~~~ei~~~~~T~I~~~  113 (246)
T 1jmc_A           77 KVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPC  113 (246)
T ss_dssp             CEEEEECCEEEECCGGGCCCCCSEEEECCTTCEEEEC
T ss_pred             CEEEECCCEEEEcccCcccCCCCEEEEEcCCcEEEEc
Confidence            9999998544432 22223346799999876666666

>2kbn_A Conserved protein; nucleic acid binding protein, beta barrel, structural genomics, PSI-2, protein structure initiative; NMR {Methanosarcina mazei} PDB: 2ken_A

Probab=92.18  E-value=0.89  Score=37.47  Aligned_cols=87  Identities=10%  Similarity=0.056  Sum_probs=62.0

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeecc--CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEE-EE
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRP--VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI-GV  168 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~--~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~-G~  168 (435)
                      +.+|.+|.+  .+..|.+.|+|.++-.  .|+....+.|.|.+++|-+++=....         +..+..|++|.|. |.
T Consensus         5 ~~kI~dl~~--~~~~v~v~~~V~~~~~~~~~~~~~~~~l~DeTG~I~~t~W~~~~---------~~~~~~G~~V~i~n~~   73 (109)
T 2kbn_A            5 LTKIVDIVE--NGQWANLKAKVIQLWENTHESISQVGLLGDETGIIKFTIWKNAE---------LPLLEQGESYLLRSVV   73 (109)
T ss_dssp             BCCTTTCCS--TTCEEEEEEEEEEEEECCCSSEEEEEEEECTTCCEEEEEEGGGC---------CCCCCTTCEEEEEEEE
T ss_pred             ceEHHHCCC--CCCcEEEEEEEEEeEcCCCCeEEEEEEEECCCCeEEEEEECccc---------ccccCCCCEEEEEEEE
Confidence            456777764  3678999999988643  34455568899999999999864221         2478999999999 56


Q ss_pred             EecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          169 VSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       169 v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      +..=       .|.++|.+.+...+.+.
T Consensus        74 v~~~-------~G~~~L~v~~~~~I~~~   94 (109)
T 2kbn_A           74 VGEY-------NDRFQVQVNKNSSIEKL   94 (109)
T ss_dssp             EEEE-------TTEEEEEECSSSEEEEC
T ss_pred             EEEE-------CCEEEEEECCceEEEEC
Confidence            5431       24689999877666554

>2pi2_A Replication protein A 32 kDa subunit; FULL-length RPA14/32, ssDNA binding protein, OB-fold, dioxan replication, DNA binding protein; 2.00A {Homo sapiens} SCOP: b.40.4.3 PDB: 2z6k_A 1dpu_A 1z1d_A

Probab=90.99  E-value=1.1  Score=42.80  Aligned_cols=79  Identities=14%  Similarity=0.151  Sum_probs=55.8

Q ss_pred             CEEEEEEEEeeeccCCCceEEEEEEeCCe-EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeE
Q 013856          105 QEVLIRGRVHTTRPVGNKLAFVVVRERVS-TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQV  183 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~-~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~l  183 (435)
                      ..|++-|+|.++...+..+ -+.|.|+++ .|-|.+-.......    .-...+..|++|.|.|.|..-.       +..
T Consensus        72 ~~V~ivG~V~~i~~~~~~~-~~~L~D~TG~~I~~k~W~~~~~~~----~~~~~~~~G~yVrV~G~v~~f~-------g~~  139 (270)
T 2pi2_A           72 SQVTIVGIIRHAEKAPTNI-VYKIDDMTAAPMDVRQWVDTDDTS----SENTVVPPETYVKVAGHLRSFQ-------NKK  139 (270)
T ss_dssp             SEEEEEEEEEEEEECSSEE-EEEEECSSSSCEEEEEECC-----------CCCCCTTCEEEEEEEEEEET-------TEE
T ss_pred             EEEEEEEEEEEEEeccceE-EEEEECCCCCEEEEEEEcCcCccc----chhhcCCCCCEEEEEEEEEecC-------Cee
Confidence            3699999999998776454 468999999 89999864321100    0135699999999999986421       357


Q ss_pred             EEEEeEEEEeec
Q 013856          184 EVQIKKLYCVSR  195 (435)
Q Consensus       184 EI~v~~i~vls~  195 (435)
                      .|.+..|..+..
T Consensus       140 qi~i~~ir~v~d  151 (270)
T 2pi2_A          140 SLVAFKIMPLED  151 (270)
T ss_dssp             EEEEEEEEECSC
T ss_pred             EEEEEEEEecCC
Confidence            788888877654

>3kdf_A Replication protein A 14 kDa subunit; wheat GERM cell free, protein complex, center for eukaryotic structural genomics, PSI; HET: MSE; 1.98A {Homo sapiens} SCOP: b.40.4.3 PDB: 1quq_B 1l1o_A

Probab=90.87  E-value=1.2  Score=37.68  Aligned_cols=79  Identities=19%  Similarity=0.300  Sum_probs=52.2

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      ++.-+-|. .+.|+.|++-|+|.+++..|+  .|+.-..+++.|+|.++...+          ..+  +.+|.|.|+|..
T Consensus        11 RVn~s~L~-~fvgk~VrivGkV~~~~~~g~--~~~l~s~Dg~~Vtv~l~~p~~----------~~l--~~~vEViG~V~~   75 (121)
T 3kdf_A           11 RINAGMLA-QFIDKPVCFVGRLEKIHPTGK--MFILSDGEGKNGTIELMEPLD----------EEI--SGIVEVVGRVTA   75 (121)
T ss_dssp             EECGGGGG-GGTTCEEEEEEEEEEECTTSS--EEEEECTTSCEEEEECSSCCS----------SCC--CSEEEEEEEECT
T ss_pred             eECHHHHH-hhCCCeEEEEEEEEEEcCCCC--EEEEEeCCCCEEEEEeCCCCC----------ccc--CcEEEEEEEECC
Confidence            33333343 688999999999999998883  343333457788888874211          122  459999999863


Q ss_pred             CCccCCCCceeEEEEEeEEEEeec
Q 013856          172 PDVEIKGATQQVEVQIKKLYCVSR  195 (435)
Q Consensus       172 ~~~~~~~~t~~lEI~v~~i~vls~  195 (435)
                                ..+|.+..+..++.
T Consensus        76 ----------~~tI~~~~~~~fg~   89 (121)
T 3kdf_A           76 ----------KATILCTSYVQFKE   89 (121)
T ss_dssp             ----------TSCEEEEEEEECCC
T ss_pred             ----------CCeEEEEEEEecCC
Confidence                      23467766655554

>1txy_A Primosomal replication protein N; OB fold, dimer, DNA binding protein; 2.00A {Escherichia coli} SCOP: b.40.4.3 PDB: 1woc_A 2pnh_A 4apv_A

Probab=90.27  E-value=3.6  Score=33.38  Aligned_cols=53  Identities=11%  Similarity=0.234  Sum_probs=33.3

Q ss_pred             EEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeec
Q 013856          135 VQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSR  195 (435)
Q Consensus       135 iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~  195 (435)
                      ++|++-...   - +  ...+.|++|+.|.|+|.+... ....|.+. ++|++.+|+.|+.
T Consensus        50 ~~vv~~g~~---A-e--~~~~~l~KG~~V~V~G~L~~~-~~~~G~~r-~~v~~~~i~~l~~  102 (104)
T 1txy_A           50 MPVIVSGHE---N-Q--AITHSITVGSRITVQGFISCH-KAKNGLSK-MVLHAEQIELIDS  102 (104)
T ss_dssp             EEEEEESST---T-H--HHHTTCCTTCEEEEEEEEEC---------C-CEEEEEEEEEC--
T ss_pred             EEEEEEhHH---H-H--HHHhhCCCCCEEEEEEEEEec-cCCCCCEE-EEEEEEEEEECcC
Confidence            888887432   1 1  234569999999999999854 22223233 8999999998853

>3kf8_A Protein STN1; OB fold; 2.40A {Candida tropicalis mya-3404}

Probab=90.14  E-value=1.8  Score=40.30  Aligned_cols=89  Identities=11%  Similarity=0.147  Sum_probs=55.7

Q ss_pred             CEEEEEEEEeeeccCCC-------ceEEEEEEeCCe---EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc
Q 013856          105 QEVLIRGRVHTTRPVGN-------KLAFVVVRERVS---TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV  174 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~-------kl~Fl~Lrd~~~---~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~  174 (435)
                      +.|.|.|.|...+-.-.       ...|+.|-|.++   +|.|.++.... .+-. .+ ......|.+|.|+|.+..-..
T Consensus        86 ~~V~IvG~VVg~~~k~~r~~~~~~~~~~l~IDDsSG~~s~i~~k~~~~~~-~~~g-l~-l~~~~~G~iV~VkG~i~~~r~  162 (220)
T 3kf8_A           86 NQINIFGKIVYEQYKEKEFNGVEESYVILVISDFIGIDSKIRVRLSQEQF-KEVG-LT-LDKKNYGKIVELEGEIYNWYD  162 (220)
T ss_dssp             CEEEEEEEEEEEEEECCBCSSCBCCEEEEEEECCCSSSCEEEEEEEHHHH-HTTT-CC-TTSCCTTCEEEEEEEEEECCC
T ss_pred             EEEEEEEEEEEEEEEeccccccccceEEEEEeCCCCCCceEEEEecHHHh-hccC-cc-ccccCCCeEEEEEEEEEeecc
Confidence            57999999999875431       347888989876   58877664210 0000 00 112457999999999974211


Q ss_pred             cCC-CCceeEEEEEeEEEEeecC
Q 013856          175 EIK-GATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       175 ~~~-~~t~~lEI~v~~i~vls~~  196 (435)
                      ... +..-.-||.++++.+++..
T Consensus       163 ~~~~~~~~~rei~ve~i~vl~~~  185 (220)
T 3kf8_A          163 SINVSKKPDRELKVSKITVLSHR  185 (220)
T ss_dssp             STTTTSCCCEEEEEEEEEEEESS
T ss_pred             ccccccccceEEEEEEEEEeccC
Confidence            110 1111469999999999754

>2hpi_A DNA polymerase III alpha subunit; POL-beta-like nucleotidyltransferase fold, transferase; HET: DNA; 3.00A {Thermus aquaticus} PDB: 2hpm_A* 3e0d_A*

Probab=89.64  E-value=0.51  Score=54.29  Aligned_cols=79  Identities=13%  Similarity=0.188  Sum_probs=46.7

Q ss_pred             CCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC
Q 013856          102 LKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK  177 (435)
Q Consensus       102 ~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~  177 (435)
                      ..|+.|+|+|-|.+++.    .|+.++|+.|.|.++.+.+++.....      -++...|..+.+|.|+|.|...+    
T Consensus      1040 ~~g~~v~v~G~v~~~~~~~Tk~G~~maf~tleD~tg~~evvvf~~~~------~~~~~~l~~~~~~~v~G~v~~~~---- 1109 (1220)
T 2hpi_A         1040 PGKPKVLLSGMVEEVVRKPTRSGGMMARFTLSDETGALEVVVFGRAY------EGVSPKLKEDIPLLVLAEVEKGE---- 1109 (1220)
T ss_dssp             SSSCEEEEEEEECCC------------CEEEEETTEEEEEC-------------------CTTCEEEEEEEEC-------
T ss_pred             cCCCeEEEEEEEEEEEEeecCCCCeEEEEEEEECCCCEEEEEcHHHH------HHHHHHhccCCEEEEEEEEEECC----
Confidence            46889999999998774    45679999999999999999986422      23445689999999999996421    


Q ss_pred             CCceeEEEEEeEEEEee
Q 013856          178 GATQQVEVQIKKLYCVS  194 (435)
Q Consensus       178 ~~t~~lEI~v~~i~vls  194 (435)
                          .+.|.+.++.-++
T Consensus      1110 ----~~~l~~~~i~~l~ 1122 (1220)
T 2hpi_A         1110 ----ELRVLAQAVWTLE 1122 (1220)
T ss_dssp             ------CEEEEEEEEHH
T ss_pred             ----CcEEEEeeeecHH
Confidence                2567777777554

>2k75_A Uncharacterized protein TA0387; closed beta barrel, OB fold, structural genomics, PSI-2, protein structure initiative; NMR {Thermoplasma acidophilum}

Probab=89.31  E-value=2.6  Score=34.48  Aligned_cols=88  Identities=10%  Similarity=0.152  Sum_probs=60.1

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeee-----ccCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTT-----RPVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD  164 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~-----R~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~  164 (435)
                      +.+|++|.+.  ...|.+.|+|.++     +..|+  .++=+.|-|.+++|.+.+=..             .+..|++|.
T Consensus         3 ~~kI~dl~pg--~~~v~v~~~V~~~~~~~~~k~G~~~~v~~~~l~DeTG~I~~tlW~~-------------~l~~Gdvv~   67 (106)
T 2k75_A            3 LVKIRDVSLS--TPYVSVIGKITGIHKKEYESDGTTKSVYQGYIEDDTARIRISSFGK-------------QLQDSDVVR   67 (106)
T ss_dssp             BCCSTTCCTT--CSEEEEEEEEEEEEEEEEEETTEEEEEEEEEEECSSCEEEEEEESS-------------CCCTTEEEE
T ss_pred             cEEHHHcCCC--CceEEEEEEEEEccccccccCCCeeEEEEEEEEcCCCeEEEEEEcC-------------ccCCCCEEE
Confidence            4567777542  3457888888764     23453  256678889999998887632             189999999


Q ss_pred             EE-EEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCc
Q 013856          165 VI-GVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPI  201 (435)
Q Consensus       165 V~-G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~  201 (435)
                      |. |.+..-       .+.++|.+.+.-.+.+. ..-|+
T Consensus        68 i~ng~v~~~-------~g~~~L~v~~~~~I~~~~~~~~~   99 (106)
T 2k75_A           68 IDNARVAQF-------NGYLSLSVGDSSRIESVNVNIPL   99 (106)
T ss_dssp             EEEEEEEEE-------TTEEEEEECTTSEEEECCSCCCC
T ss_pred             EEeeEEeEE-------CCEEEEEECCcEEEEECCCCCcc
Confidence            99 666421       25699999887777766 54454

>4gop_C Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=89.12  E-value=0.65  Score=47.52  Aligned_cols=96  Identities=14%  Similarity=0.129  Sum_probs=64.4

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeee---c------cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCce
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTT---R------PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI  162 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~---R------~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esi  162 (435)
                      ++.|.+|.+..  ..++|+|||.++   |      ..| ++.-++|.|.+|.|++++...      ..-+|...|..|++
T Consensus         3 ~~~I~~L~p~~--~~w~I~~rV~~k~~ir~~~~~~~~g-~~~~~~L~De~G~I~at~~~~------~~~~f~~~l~eG~v   73 (444)
T 4gop_C            3 IYPIEGLSPYQ--NRWTIKARVTSKSDIRHWSNQRGEG-KLFSVNLLDDSGEIKATGFND------AVDRFYPLLQENHV   73 (444)
T ss_dssp             CCCSTTCCTTC--CSCEEEEECCEECCCEEEECSSCEE-EEEEEEEECSSCEEEEEEETH------HHHHHTTTCCTTCE
T ss_pred             ceeHHHCCCCC--cceEEEEEEEEccCcceecCCCCCc-eEEEEEEEcCCCEEEEEEeHH------HHHHHHHheecCCE
Confidence            45677776643  357899999853   3      224 677789999999999998732      23456678999999


Q ss_pred             EEEEEEEecC-CccCCCCceeEEEEEeEEEEeecC
Q 013856          163 VDVIGVVSVP-DVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       163 V~V~G~v~~~-~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      +.|.+...++ ...-+...+.+||....-..+.+|
T Consensus        74 y~Is~~~V~~~~~~y~~~~~~~ei~~~~~T~V~~~  108 (444)
T 4gop_C           74 YLISKARVNIAKKQFSNLQNEYEITFENSTEIEEC  108 (444)
T ss_dssp             EEEESCEEEECCGGGCSCCCSEEEEECTTCEEEEC
T ss_pred             EEEcCCEEEecCCccccCCCCEEEEEcCCcEEEEc
Confidence            9999854433 222223336799999764444444

>3fhw_A Primosomal replication protein N; PRIB BPR162 X-RAY NESG, structural genomics, PSI-2, protein initiative; 1.90A {Bordetella parapertussis} PDB: 3dm4_A 3klw_A

Probab=88.27  E-value=7.2  Score=32.49  Aligned_cols=56  Identities=11%  Similarity=0.235  Sum_probs=39.9

Q ss_pred             EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCC
Q 013856          134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTP  200 (435)
Q Consensus       134 ~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP  200 (435)
                      .|+|++-.+       ..+.++.+.+|+.|.|+|.+....+  .+  ..++|+++.|..|+.. ..-|
T Consensus        48 ~i~vv~~Gk-------~AE~~~~l~kGs~V~VeGrL~trs~--~G--~kl~l~a~~Ie~l~~~~~~~~  104 (115)
T 3fhw_A           48 TISAVALGD-------LALLLADTPLGTEMQVQGFLAPARK--DS--VKVKLHLQQARRIAGSMGRDP  104 (115)
T ss_dssp             EEEEEEETH-------HHHHHTTCCTTCEEEEEEEEEESST--TC--SSEEEEEEEEEECCCSCCC--
T ss_pred             EEEEEEEhH-------HHHhhhccCCCCEEEEEEEEEECCC--CC--CEEEEEEEEEEEcCCCCCCCC
Confidence            488888742       2334578999999999999985432  23  3599999999999765 4434

>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta homodimer, ligase; HET: FYA; 2.50A {Thermus thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1 d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B 2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B*

Probab=88.15  E-value=1.6  Score=48.11  Aligned_cols=106  Identities=21%  Similarity=0.157  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHHhhcCCeeeecCceeeecC----CCCCcceeee-ccCC-CceeeccChHHHHhhhccC----C---Ccee
Q 013856          251 QSQVGNIFRQFLLSENFVEIHTPKLIAGS----SEGGSAVFRL-DYKG-QSACLAQSPQLHKQMSICG----D---FGRV  317 (435)
Q Consensus       251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~egga~~F~~-~~~~-~~~~L~~Spql~lq~li~~----g---~~rV  317 (435)
                      ...+.+.+|++|...||.|+-|-.+++..    ...+...+.+ |-.. ..-.||+|-=--+=..+..    +   -=|+
T Consensus       491 ~~~~~~~ir~~L~~~Gf~Evitysfvs~~~~~~l~~~~~~v~L~NPis~d~svLRtsLlpgLL~~l~~N~~r~~~~~vrl  570 (785)
T 1b7y_B          491 PYRKEQRLREVLSGLGFQEVYTYSFMDPEDARRFRLDPPRLLLLNPLAPEKAALRTHLFPGLVRVLKENLDLDRPERALL  570 (785)
T ss_dssp             HHHHHHHHHHHHHHHTCEECCCCSEECTTHHHHTTCCCCSCEESSCSSTTSSEECSCSHHHHHHHHHHHHHHSCCSCEEE
T ss_pred             HHHHHHHHHHHHHHCCCEEEecCcccCHHHHHhcCCCCCeEEEcCCCchhhhhhhhhhHHHHHHHHHHHhhcCCCCCeEE
Confidence            45567889999999999999998887642    1112233444 2222 2336776532222222221    2   2389


Q ss_pred             EEEecceecCcCCCCccccchhhheeeeccc-----------ccHHHHHHHHHHHHHHH
Q 013856          318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-----------KHYSEVMDIVDCLFVTI  365 (435)
Q Consensus       318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-----------~~~~d~m~~~e~l~~~i  365 (435)
                      ||||+||| +        .||.++..-+...           -++.|+...++.++..+
T Consensus       571 FEiG~Vf~-~--------~e~~~lagl~~G~~~~~~w~~~~~vdf~dlKg~le~ll~~l  620 (785)
T 1b7y_B          571 FEVGRVFR-E--------REETHLAGLLFGEGVGLPWAKERLSGYFLLKGYLEALFARL  620 (785)
T ss_dssp             EEEEEEES-S--------SEEEEEEEEEESSCBSCSSSSCCBCSHHHHHHHHHHHHHHH
T ss_pred             EEEeeeec-c--------ChhhEEEEEEECCCcccccCccCCcCHHHHHHHHHHHHHHc
Confidence            99999999 2        6788888765543           14889999999998865

>3tqy_A Single-stranded DNA-binding protein; DNA replication, transferase; 2.60A {Coxiella burnetii}

Probab=84.90  E-value=11  Score=33.07  Aligned_cols=57  Identities=9%  Similarity=0.074  Sum_probs=37.1

Q ss_pred             eEEEEEEeeCCCCCCHHHHHH-HhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856          133 STVQCLATVKPDSVSKEMVRF-VRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       133 ~~iQvv~~~~~~~~~~~~~~~-~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      .-+.|++-..       .... ...|.+|+.|.|+|.+....- ...+.+ -.+||.+.+|.+|...
T Consensus        56 ~~i~vv~wg~-------~Ae~~~~~l~KG~~V~VeG~L~~~~~~dkdG~~r~~~eV~a~~i~~L~~k  115 (158)
T 3tqy_A           56 EWHRIAFFNR-------LAEIVGEYLRKGSKIYIEGSLRTRKWQDKNGVDRYTTEIIANEMHMLDNR  115 (158)
T ss_dssp             EEEEEEEETH-------HHHHHHHHCCTTCEEEEEEEEEEEEEECSSSCEEEEEEEEEEEEEECC--
T ss_pred             EEEEEEEEhH-------HHHHHHhhcCCCCEEEEEEEEEeeeEECCCCCEEEEEEEEEeEEEEccCC
Confidence            4577777632       2233 356999999999999874321 122433 3499999999999653

>2vw9_A Single-stranded DNA binding protein; DNA replication, single-stranded DNA, single-stranded DNA binding protein, oligonucleotide/oligosaccharide binding fold, OB-fold; 2.30A {Helicobacter pylori}

Probab=84.49  E-value=8.9  Score=32.53  Aligned_cols=58  Identities=14%  Similarity=0.127  Sum_probs=38.1

Q ss_pred             CeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEeEEEEeecC
Q 013856          132 VSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       132 ~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      +.-+.|++-..       ..+.+ ..|.+||.|.|+|.+....-. ..+.+ -.+||.+.+|..|...
T Consensus        48 t~~~~v~~wg~-------~Ae~~~~~l~KG~~V~V~G~L~~~~~~dkdG~~r~~~ev~a~~i~~l~~~  108 (134)
T 2vw9_A           48 VCFIDARLFGR-------TAEIANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFMDKK  108 (134)
T ss_dssp             EEEEEEEEEHH-------HHHHHHHHCCTTCEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEECCCC
T ss_pred             cEEEEEEEEcH-------HHHHHHHhCCCCCEEEEEEEEEeeeEECCCCCEEEEEEEEEEEEEEccCC
Confidence            34577877632       22333 469999999999998742211 22333 2489999999998653

>4gop_A Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=84.00  E-value=2.3  Score=35.50  Aligned_cols=54  Identities=26%  Similarity=0.370  Sum_probs=39.3

Q ss_pred             CCCCCEEEEEEEEeeeccCCCceEEEEEEe-CCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856          101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVRE-RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus       101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd-~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      .+.|++|+|-|+|.+.+. +   . +.|.. +++.|.|.++...            .+..+.+|.|.|+|..
T Consensus        15 ~~~g~~VrivGkV~~~~g-~---~-~~l~s~d~~~Vtv~l~~~~------------~~~~~~~vEViG~V~~   69 (114)
T 4gop_A           15 QYVGQTVRIVGKVHKVTG-N---T-LLMQTSDLGNVEIAMTPDS------------DVSSSTFVEVTGKVSD   69 (114)
T ss_dssp             GGTTSEEEEEEEEEEEET-T---E-EEEECTTSCEEEEECCSSC------------CGGGCSEEEEEEEECT
T ss_pred             hhCCCeEEEEEEEeeeCC-C---E-EEEEeCCCCEEEEEeCCCC------------CcccCcEEEEEEEEcC
Confidence            588999999999999995 3   3 34553 4567777765321            2346899999999964

>3vdy_A SSB, single-stranded DNA-binding protein SSBB; OB fold; 2.80A {Bacillus subtilis}

Probab=83.83  E-value=13  Score=30.51  Aligned_cols=57  Identities=18%  Similarity=0.159  Sum_probs=36.3

Q ss_pred             eEEEEEEeeCCCCCCHHHHH-HHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856          133 STVQCLATVKPDSVSKEMVR-FVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA  196 (435)
Q Consensus       133 ~~iQvv~~~~~~~~~~~~~~-~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~  196 (435)
                      .-++|++-..       ... ....|.+||.|.|+|.+....- ...|.+ ..+||.+..|..|...
T Consensus        50 ~~~~v~~wg~-------~Ae~~~~~l~KG~~V~V~G~l~~~~~~d~dG~~~~~~ev~a~~i~~l~~~  109 (116)
T 3vdy_A           50 DYVNCTLWRK-------TAENTALYCQKGSLVGVSGRIQTRSYENEEGVNVYVTEVLADTVRFMDPK  109 (116)
T ss_dssp             EEEEEEEEHH-------HHHHHHHHCCTTCEEEEEEEEEEEEEC----CCEEEEEEEEEEEEECC--
T ss_pred             EEEEEEEECH-------HHHHHHHhCCCCCEEEEEEEEEeeEEECCCCCEEEEEEEEEEEEEEccCC
Confidence            4578887642       223 3356999999999999874321 122333 3499999999998653

>2pi2_E Replication protein A 14 kDa subunit; FULL-length RPA14/32, ssDNA binding protein, OB-fold, dioxan replication, DNA binding protein; 2.00A {Homo sapiens} SCOP: b.40.4.3 PDB: 2pqa_B 2z6k_C

Probab=83.04  E-value=6.4  Score=34.10  Aligned_cols=57  Identities=23%  Similarity=0.363  Sum_probs=40.2

Q ss_pred             CCCCCCEEEEEEEEeeeccCCCceEEEEEEe-CCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856          100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRE-RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus       100 ~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd-~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      ....|++|+|-|||.++-..| + .| .|.. ++..|+|.++..   ++         -..+.+|.|.|+|..
T Consensus        39 ~~fvGk~VriVGkV~~~~~~G-~-~~-~l~s~Dg~~VtV~l~~p---L~---------~~~~~~VEViG~V~~   96 (142)
T 2pi2_E           39 AQFIDKPVCFVGRLEKIHPTG-K-MF-ILSDGEGKNGTIELMEP---LD---------EEISGIVEVVGRVTA   96 (142)
T ss_dssp             GGSTTCEEEEEEEEEEECTTS-S-EE-EEECTTSCEEEEECSSC---CS---------SCCCSEEEEEEEECT
T ss_pred             HhhCCCEEEEEEEEeEEcCCC-C-EE-EEEeCCCcEEEEEeCCC---CC---------ccCCCEEEEEEEECC
Confidence            468899999999999995556 3 33 4554 567888887632   11         124679999999953

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	435
d1eova2	353	d.104.1.1 (A:205-557) Aspartyl-tRNA synthetase (As	6e-49
d1n9wa2	304	d.104.1.1 (A:111-414) Aspartyl-tRNA synthetase (As	3e-33
d1c0aa3	346	d.104.1.1 (A:107-287,A:421-585) Aspartyl-tRNA synt	5e-33
d1l0wa3	356	d.104.1.1 (A:105-294,A:415-580) Aspartyl-tRNA synt	8e-33
d1b8aa2	335	d.104.1.1 (A:104-438) Aspartyl-tRNA synthetase (As	9e-31
d1nnha_	293	d.104.1.1 (A:) Hypothetical protein PF1951 {Archae	1e-28
d1e1oa2	342	d.104.1.1 (A:161-502) Lysyl-tRNA synthetase (LysRS	2e-26
d1eova1	134	b.40.4.1 (A:71-204) Aspartyl-tRNA synthetase (AspR	6e-21
d1b8aa1	103	b.40.4.1 (A:1-103) Aspartyl-tRNA synthetase (AspRS	1e-09
d1n9wa1	93	b.40.4.1 (A:1-93) Aspartyl-tRNA synthetase (AspRS)	1e-08
d1c0aa1	106	b.40.4.1 (A:1-106) Aspartyl-tRNA synthetase (AspRS	6e-08
d1l0wa1	104	b.40.4.1 (A:1-104) Aspartyl-tRNA synthetase (AspRS	1e-06

>d1eova2 d.104.1.1 (A:205-557) Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 353

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  168 bits (426), Expect = 6e-49
 Identities = 130/238 (54%), Positives = 165/238 (69%), Gaps = 7/238 (2%)

Query: 200 PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFR 259
           PI +EDASRSEAE E A      LP VN DTRL+ RVID+RT+ NQ IFRIQ+ V  +FR
Sbjct: 1   PILLEDASRSEAEAEAA-----GLPVVNLDTRLDYRVIDLRTVTNQAIFRIQAGVCELFR 55

Query: 260 QFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFE 319
           ++L ++ F E+HTPKL+   SEGGS+VF + Y    A LAQSPQ +KQ  I  DF RV+E
Sbjct: 56  EYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKGKAYLAQSPQFNKQQLIVADFERVYE 115

Query: 320 TGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEA 379
            GPVFRAE+S THRH+ EFTGLD+EM  ++HY EV+D +  LFV IF  L      E+E 
Sbjct: 116 IGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLSELFVFIFSELPKRFAHEIEL 175

Query: 380 VAKQYPFEPLKYKP--KTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
           V KQYP E  K     K +RLT++EG++ML+ AG EI    DL+TE+E+ LG+LV +K
Sbjct: 176 VRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGDFEDLSTENEKFLGKLVRDK 233

>d1n9wa2 d.104.1.1 (A:111-414) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-2 [TaxId: 274]} Length = 304

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-2 [TaxId: 274]

 Score =  124 bits (313), Expect = 3e-33
 Identities = 64/201 (31%), Positives = 105/201 (52%), Gaps = 6/201 (2%)

Query: 235 RVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQ 294
           R + +R    +   ++Q+ +   FR++L  ++F EI TPK++   +EGGS +F +DY  +
Sbjct: 2   RYVTLRGEKARAPLKVQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEGGSGLFGVDYFEK 61

Query: 295 SACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEV 354
            A LAQSPQ   +  + G F RV+E  PV+R E+ +T RHL E+  LDVEM       ++
Sbjct: 62  RAYLAQSPQ-LYKQIMVGVFERVYEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDL 120

Query: 355 MDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEI 414
           M + + L   + +   N    E+  +   +P  P         LT  E  ++LK+  +  
Sbjct: 121 MRLEEALLAEMLEEALNTAGDEIRLLGATWPSFPQDIPR----LTHAEAKRILKE-ELGY 175

Query: 415 DPLGDLNTESERKLGQLVLEK 435
               DL+ E+ER LG+   E+
Sbjct: 176 PVGQDLSEEAERLLGEYAKER 196

>d1c0aa3 d.104.1.1 (A:107-287,A:421-585) Aspartyl-tRNA synthetase (AspRS) {Escherichia coli [TaxId: 562]} Length = 346

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Escherichia coli [TaxId: 562]

 Score =  125 bits (314), Expect = 5e-33
 Identities = 44/186 (23%), Positives = 79/186 (42%), Gaps = 4/186 (2%)

Query: 226 VNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA 285
             ++ RL  R +D+R        + ++++ ++ R+F+    F++I TP L   + EG   
Sbjct: 10  NTEEARLKYRYLDLRRPEMAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTKATPEGARD 69

Query: 286 --VFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343
             V    +KG+   L QSPQL KQ+ +   F R ++    FR ED    R   EFT +DV
Sbjct: 70  YLVPSRVHKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFRDEDLRADRQ-PEFTQIDV 128

Query: 344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEG 403
           E        +V ++++ L   ++  +  V   +   +               LR   +  
Sbjct: 129 ETSF-MTAPQVREVMEALVRHLWLEVKGVDLGDFPVMTFAEAERRYGSDKPDLRDESKWA 187

Query: 404 VQMLKD 409
              + D
Sbjct: 188 PLWVID 193

>d1l0wa3 d.104.1.1 (A:105-294,A:415-580) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-1 [TaxId: 274]} Length = 356

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-1 [TaxId: 274]

 Score =  124 bits (313), Expect = 8e-33
 Identities = 61/234 (26%), Positives = 90/234 (38%), Gaps = 30/234 (12%)

Query: 200 PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFR 259
           P  ++   R E E E            +++ RL  R +D+R    Q   R++ +V     
Sbjct: 3   PFPVDAGWRGEEEKE-----------ASEELRLKYRYLDLRRRRMQENLRLRHRVIKAIW 51

Query: 260 QFLLSENFVEIHTPKLIAGSSEGGSAVF--RLDYKGQSACLAQSPQLHKQMSICGDFGRV 317
            FL  E FV++ TP L   + EG            G    L QSPQL KQM +     R 
Sbjct: 52  DFLDREGFVQVETPFLTKSTPEGARDFLVPYRHEPGLFYALPQSPQLFKQMLMVAGLDRY 111

Query: 318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKEL 377
           F+    FR ED    R   +FT LD+EM       +V+++ + L   +F     V     
Sbjct: 112 FQIARCFRDEDLRADRQ-PDFTQLDLEMSF-VEVEDVLELNERLMAHVFREALGVELP-- 167

Query: 378 EAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEID-----PLGDLNTESER 426
                  PF  L Y+    R   ++    L+  G         PL + + E E 
Sbjct: 168 ------LPFPRLSYEEAMERYGSDK--PDLRREGFRFLWVVDFPLLEWDEEEEA 213

>d1b8aa2 d.104.1.1 (A:104-438) Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococcus kodakaraensis [TaxId: 311400]} Length = 335

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Archaeon Pyrococcus kodakaraensis [TaxId: 311400]

 Score =  118 bits (297), Expect = 9e-31
 Identities = 73/201 (36%), Positives = 112/201 (55%), Gaps = 4/201 (1%)

Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
             +   DTRLNNR +D+R      IF+I+S V    R F     F+EIHTPK+IA ++EG
Sbjct: 9   KVKAELDTRLNNRFMDLRRPEVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEG 68

Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
           G+ +F + Y  + A LA+SPQL+K++ +     RV+E  P+FRAE+  T RHL E   +D
Sbjct: 69  GTELFPMKYFEEDAFLAESPQLYKEIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSID 128

Query: 343 VEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEE 402
            EM   +   EVM  ++ L     + +     KEL+       FE  + K    R+++++
Sbjct: 129 SEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELD----ILNFELEEPKLPFPRVSYDK 184

Query: 403 GVQMLKDAGVEIDPLGDLNTE 423
            +++L D G EI    D++TE
Sbjct: 185 ALEILGDLGKEIPWGEDIDTE 205

>d1nnha_ d.104.1.1 (A:) Hypothetical protein PF1951 {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 293

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Hypothetical protein PF1951
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score =  112 bits (280), Expect = 1e-28
 Identities = 32/148 (21%), Positives = 55/148 (37%), Gaps = 10/148 (6%)

Query: 237 IDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP-------KLIAGSSEGGSAVFRL 289
           ++I +        IQ+++      F + E F  +           L    +  G     +
Sbjct: 3   VEIISREISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPAEV 62

Query: 290 DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED--SYTHRHLCEFTGLDVEMEI 347
           +  G    L  S  LHKQ++I     ++F   P  R E       RH  EFT LD E+E 
Sbjct: 63  EIYGVKMRLTHSMILHKQLAIAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVER 122

Query: 348 KKHYSEVMDIVDCLFVTIFDSLNNVCKK 375
                ++M +++ L   +F        +
Sbjct: 123 -AKMEDIMRLIERLVYGLFRKAEEWTGR 149

>d1e1oa2 d.104.1.1 (A:161-502) Lysyl-tRNA synthetase (LysRS) {Escherichia coli, gene lysU [TaxId: 562]} Length = 342

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Lysyl-tRNA synthetase (LysRS)
species: Escherichia coli, gene lysU [TaxId: 562]

 Score =  106 bits (266), Expect = 2e-26
 Identities = 48/214 (22%), Positives = 90/214 (42%), Gaps = 9/214 (4%)

Query: 228 QDTRLNNRVID-IRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAV 286
           Q+ R   R +D I    ++  F ++S++    RQF+++  F+E+ TP +        +  
Sbjct: 2   QEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARP 61

Query: 287 FR--LDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE 344
           F    +       L  +P+L+ +  + G F RVFE    FR E   + RH  EFT +++ 
Sbjct: 62  FITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGI-SVRHNPEFTMMELY 120

Query: 345 MEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKEL--EAVAKQYPFEPLKYKPKTLRLTFEE 402
           M    ++ +++++ + LF T+   +    K            PFE L  +    +   E 
Sbjct: 121 MAYADYH-DLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYRPET 179

Query: 403 GVQMLKDAGVEIDPLGDLN--TESERKLGQLVLE 434
            +  L +          +    E    LG++V E
Sbjct: 180 DMADLDNFDAAKALAESIGITVEKSWGLGRIVTE 213

>d1eova1 b.40.4.1 (A:71-204) Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 134

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 86.3 bits (213), Expect = 6e-21
 Identities = 51/140 (36%), Positives = 76/140 (54%), Gaps = 13/140 (9%)

Query: 62  NNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGAL-NGSLKDQEVLIRGRVHTTRPVG 120
           +NYG +PL  +QS +  +TG        ++  +   L      D+EVL R RVH TR  G
Sbjct: 3   DNYGKLPL--IQSRDSDRTG--------QKRVKFVDLDEAKDSDKEVLFRARVHNTRQQG 52

Query: 121 NKLAFVVVRERVSTVQCLATVK-PDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGA 179
             LAF+ +R++ S +Q L       ++SK MV++  SL+ ESIV V G+V   D  IK A
Sbjct: 53  ATLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKSA 112

Query: 180 -TQQVEVQIKKLYCVSRAAK 198
             Q +E+ I K+Y +S   +
Sbjct: 113 TVQNLEIHITKIYTISETPE 132

>d1b8aa1 b.40.4.1 (A:1-103) Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococcus kodakaraensis [TaxId: 311400]} Length = 103

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Archaeon Pyrococcus kodakaraensis [TaxId: 311400]

 Score = 52.7 bits (126), Expect = 1e-09
 Identities = 26/101 (25%), Positives = 45/101 (44%), Gaps = 7/101 (6%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
             +   L  Q+V + G V   + +G  + F+ +R+R   VQ   T     V  E+ + + 
Sbjct: 8   SEITEELNGQKVKVAGWVWEVKDLG-GIKFLWIRDRDGIVQI--TAPKKKVDPELFKLIP 64

Query: 156 SLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA 196
            L +E +V V GVV         A    E+  +K+  ++RA
Sbjct: 65  KLRSEDVVAVEGVV----NFTPKAKLGFEILPEKIVVLNRA 101

>d1n9wa1 b.40.4.1 (A:1-93) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-2 [TaxId: 274]} Length = 93

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-2 [TaxId: 274]

 Score = 49.8 bits (119), Expect = 1e-08
 Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 18/98 (18%)

Query: 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
            QEV + G +H  R +G ++ F+++R+R   VQ             +   ++    ES +
Sbjct: 13  GQEVELLGFLHWRRDLG-RIQFLLLRDRSGVVQV------------VTGGLKLPLPESAL 59

Query: 164 DVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPI 201
            V G+V    VE   A   +EVQ K++  +S  A  P 
Sbjct: 60  RVRGLV----VENAKAPGGLEVQAKEVEVLSP-ALEPT 92

>d1c0aa1 b.40.4.1 (A:1-106) Aspartyl-tRNA synthetase (AspRS) {Escherichia coli [TaxId: 562]} Length = 106

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Escherichia coli [TaxId: 562]

 Score = 48.5 bits (115), Expect = 6e-08
 Identities = 30/104 (28%), Positives = 46/104 (44%), Gaps = 8/104 (7%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G L  S   Q+V + G V+  R +G  L F+ +R+R   VQ       D    + ++   
Sbjct: 7   GQLRLSHVGQQVTLCGWVNRRRDLG-SLIFIDMRDREGIVQVF----FDPDRADALKLAS 61

Query: 156 SLSNESIVDVIGVVSVPDVEIKG---ATQQVEVQIKKLYCVSRA 196
            L NE  + V G V   D +      AT ++EV    L  ++RA
Sbjct: 62  ELRNEFCIQVTGTVRARDEKNINRDMATGEIEVLASSLTIINRA 105

>d1l0wa1 b.40.4.1 (A:1-104) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-1 [TaxId: 274]} Length = 104

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-1 [TaxId: 274]

 Score = 44.7 bits (105), Expect = 1e-06
 Identities = 29/102 (28%), Positives = 49/102 (48%), Gaps = 7/102 (6%)

Query: 96  GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
           G+L  +   +EV++ G V+  R +G  L F+ +R+R   VQ      P S +      VR
Sbjct: 8   GSLRETHVGEEVVLEGWVNRRRDLG-GLIFLDLRDREGLVQL--VAHPASPAYATAERVR 64

Query: 156 SLSNESIVDVIGV-VSVPDVEIKGATQQVEVQIKKLYCVSRA 196
               E +V   G+    P+   + AT +VEV++  L  ++ A
Sbjct: 65  ---PEWVVRAKGLVRLRPEPNPRLATGRVEVELSALEVLAEA 103

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	435
d1eova2	353	Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (S	100.0
d1b8aa2	335	Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococ	100.0
d1e1oa2	342	Lysyl-tRNA synthetase (LysRS) {Escherichia coli, g	100.0
d1l0wa3	356	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	100.0
d1c0aa3	346	Aspartyl-tRNA synthetase (AspRS) {Escherichia coli	100.0
d1n9wa2	304	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	100.0
d1nnha_	293	Hypothetical protein PF1951 {Archaeon Pyrococcus f	100.0
d1eova1	134	Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (S	99.93
d1e1oa1	143	Lysyl-tRNA synthetase (LysRS) {Escherichia coli, g	99.86
d1b8aa1	103	Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococ	99.83
d1n9wa1	93	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	99.8
d1l0wa1	104	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	99.79
d1c0aa1	106	Aspartyl-tRNA synthetase (AspRS) {Escherichia coli	99.79
d1jjca_	266	Phenyl-tRNA synthetase (PheRS) alpha subunit, PheS	97.99
d1z7ma1	318	ATP phosphoribosyltransferase regulatory subunit H	97.9
d1qf6a4	291	Threonyl-tRNA synthetase (ThrRS) {Escherichia coli	97.86
d1nyra4	291	Threonyl-tRNA synthetase (ThrRS) {Staphylococcus a	97.78
d1nj8a3	268	Prolyl-tRNA synthetase (ProRS) {Archaeon (Methanoc	97.6
d1qe0a2	325	Histidyl-tRNA synthetase (HisRS) {Staphylococcus a	97.59
d1hc7a2	272	Prolyl-tRNA synthetase (ProRS) {Thermus thermophil	97.52
d1wu7a2	327	Histidyl-tRNA synthetase (HisRS) {Archaeon Thermop	97.5
d1b76a2	331	Glycyl-tRNA synthetase (GlyRS) {Thermus thermophil	97.24
d1seta2	311	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	97.09
d1h4vb2	324	Histidyl-tRNA synthetase (HisRS) {Thermus thermoph	97.09
d1kmma2	322	Histidyl-tRNA synthetase (HisRS) {Escherichia coli	97.06
d1nj1a3	265	Prolyl-tRNA synthetase (ProRS) {Arhaeon (Methanoth	97.03
d1usya_	275	ATP phosphoribosyltransferase regulatory subunit H	96.63
d1jmca1	116	Replication protein A 70 KDa subunit (RPA70) {Huma	96.38
d1nnxa_	106	Hypothetical protein YgiW {Escherichia coli [TaxId	95.06
d2pi2a1	128	Replication protein A 32 KDa subunit (RPA32) fragm	94.72
d1o7ia_	115	Archaeal ssDNA-binding protein {Archaeon Sulfolobu	93.67
d1gm5a2	180	RecG "wedge" domain {Thermotoga maritima [TaxId: 2	92.68
d2pi2e1	115	Replication protein A 14 KDa (RPA14) subunit {Huma	92.18
d1v1qa_	111	Primosomal replication protein N, PriB {Escherichi	83.93
d3ulla_	115	ssDNA-binding protein {Human (Homo sapiens), mitoc	82.99
d1jjcb5	207	Phenyl-tRNA synthetase (PheRS) beta subunit, PheT,	81.97
d12asa_	327	Asparagine synthetase {Escherichia coli [TaxId: 56	80.9

>d1eova2 d.104.1.1 (A:205-557) Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=8.3e-53  Score=423.97  Aligned_cols=230  Identities=56%  Similarity=0.869  Sum_probs=209.3

Q ss_pred             CcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC
Q 013856          200 PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS  279 (435)
Q Consensus       200 P~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~  279 (435)
                      |+.+.|+++++...+.     ...+.++.|+||||||||||++.++++|++||.|++++|+||.++||+||+||+|++++
T Consensus         1 ~~~~~~~~~~~~~~~~-----~~~~~~~~e~r~~~R~lDlr~~~~~~ilr~Rs~i~~~iR~ff~~~gflEV~TPiL~~~~   75 (353)
T d1eova2           1 PILLEDASRSEAEAEA-----AGLPVVNLDTRLDYRVIDLRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAP   75 (353)
T ss_dssp             SSCHHHHTSCHHHHHH-----TTCCCCCHHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESSC
T ss_pred             CcccccccCCcccccc-----cCCCCCCHHHHhhhhHHhhCCHhHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCCCC
Confidence            6677788877665443     35677999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHH
Q 013856          280 SEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVD  359 (435)
Q Consensus       280 ~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e  359 (435)
                      +|||+++|.+.|++.++||++|||||||+|+++|++|||+||||||||++++.||||||||||||++|.++|+++|+++|
T Consensus        76 ~eg~~~~f~~~~~~~~~yL~~Spel~lk~ll~~g~~~vf~I~~~FR~E~~~~~rH~pEFtmLE~y~a~~d~~~~i~~~~e  155 (353)
T d1eova2          76 SEGGSSVFEVTYFKGKAYLAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLDTLS  155 (353)
T ss_dssp             SSSSSCCCEEEETTEEEEECSCTHHHHHHHHHTTCCEEEEEEEEECCCCCCCTTCCSEEEEEEEEEECSSCTHHHHHHHH
T ss_pred             CcchhccccceeeCCcceeccchhhhhhhhhhcccccceeechhhhccccccccccchhcccccccccchhhHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999888999999999999999987999999999


Q ss_pred             HHHHHHhHHhhhhhHHHHHHhhhcCCCccccC--CCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHhc
Q 013856          360 CLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY--KPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       360 ~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~--~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~vke  434 (435)
                      +|+.++++.+..++...++.+...++......  ..+++|++|.+|+++|++.+..+.+.+|++++.++.|++++.+
T Consensus       156 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ri~~~ea~~~l~~~~~~~~~~~~~~~~~~~~l~~~i~~  232 (353)
T d1eova2         156 ELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEIGDFEDLSTENEKFLGKLVRD  232 (353)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHSCCCCCCCCTTCCCEEEEHHHHHHHHHHTTCCCCTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHhhhccccchhhhhhhhhhcccCccceeeccCCCceeeeehHhhHHHHHHHhhhcccccccchhhHHHHHHHHHh
Confidence            99999999999998888888777666544332  3479999999999999999988888899999999999998864

>d1b8aa2 d.104.1.1 (A:104-438) Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococcus kodakaraensis [TaxId: 311400]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Archaeon Pyrococcus kodakaraensis [TaxId: 311400]

Probab=100.00  E-value=1e-45  Score=369.34  Aligned_cols=206  Identities=36%  Similarity=0.579  Sum_probs=188.1

Q ss_pred             CCCCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChH
Q 013856          224 PRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQ  303 (435)
Q Consensus       224 ~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spq  303 (435)
                      +..+.++||||||||||++.++++|++||.|+++||+||.++||+||+||+|+++.++|++++|.++++++++||++|||
T Consensus        10 ~~~~~~~r~~~R~ldlr~~~~~~~l~~Rs~i~~~iR~ff~~~gflEV~TPil~~~~~~~~~~~f~~~~~~~~~yL~~SpE   89 (335)
T d1b8aa2          10 VKAELDTRLNNRFMDLRRPEVMAIFKIRSSVFKAVRDFFHENGFIEIHTPKIIATATEGGTELFPMKYFEEDAFLAESPQ   89 (335)
T ss_dssp             SCCCHHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSEESCCCSSSSSCCEEEETTEEEEECSCSH
T ss_pred             CCCCHHHHhhchhheeCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCccCCchhhhhccccccccccccccChH
Confidence            34688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhc
Q 013856          304 LHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQ  383 (435)
Q Consensus       304 l~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~  383 (435)
                      +|||+++++|++|||+||||||||++++.||++||||+|+|+++.++++++|++++.++.++.+.+...+..+++.++..
T Consensus        90 ~~lkrll~~g~~~if~i~~~FR~e~~~~~rh~~Ef~~le~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~  169 (335)
T d1b8aa2          90 LYKEIMMASGLDRVYEIAPIFRAEEHNTTRHLNEAWSIDSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILNFE  169 (335)
T ss_dssp             HHHHHGGGTTCCEEEEEEEEECCCSSCCSSCCSEEEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHCHHHHHHTTCC
T ss_pred             HHHHHHHhhhhhhHHHhhcccccccccccccchHHHhhhHHHHHHHhhhhHHHHHHHHHHHHHHHHhhcccchhhhhccc
Confidence            99999999999999999999999998888999999999999998767999999999999999999988887777765543


Q ss_pred             CCCccccCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHh
Q 013856          384 YPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVL  433 (435)
Q Consensus       384 ~~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~vk  433 (435)
                      ..    ....||+|++|.+|+++|.+.|.++++++|+.++..+.+..++.
T Consensus       170 ~~----~~~~~~~r~~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  215 (335)
T d1b8aa2         170 LE----EPKLPFPRVSYDKALEILGDLGKEIPWGEDIDTEGERLLGKYMM  215 (335)
T ss_dssp             CC----CCCSSCCEEEHHHHHHHHHHTTCCCCTTSCCCHHHHHHHHHHHH
T ss_pred             cc----cCCCCcccccHHHHHHHHHhhccccCcccccccccccceeeeee
Confidence            21    23458999999999999999999999999999988887776654

>d1e1oa2 d.104.1.1 (A:161-502) Lysyl-tRNA synthetase (LysRS) {Escherichia coli, gene lysU [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Lysyl-tRNA synthetase (LysRS)
species: Escherichia coli, gene lysU [TaxId: 562]

Probab=100.00  E-value=4.3e-45  Score=365.93  Aligned_cols=172  Identities=24%  Similarity=0.404  Sum_probs=153.2

Q ss_pred             Ccccccccceeee-echhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChH
Q 013856          227 NQDTRLNNRVIDI-RTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQ  303 (435)
Q Consensus       227 ~~e~rl~~R~Ldl-r~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spq  303 (435)
                      |+|+||+|||||| |++.++++|++||.|++++|+||.++||+||+||+|+++.++|++.+|.+  +||+.++||+||||
T Consensus         1 d~~~Rl~~R~lDl~r~~~~~~~~r~Rs~i~~~iR~ff~~~gFiEV~TPil~~~~~~~~~~~f~~~~~~~~~~~yL~~Spq   80 (342)
T d1e1oa2           1 DQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPE   80 (342)
T ss_dssp             CTTHHHHTHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHTTTCEECCCCSEESSCCSSCCCCCEEEETTTTEEEEECSCSH
T ss_pred             ChHhhhhcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCccccCCCCCCcceeecccCCCcccccchhhH
Confidence            4689999999999 77999999999999999999999999999999999998888888899876  68999999999999


Q ss_pred             HHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhc
Q 013856          304 LHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQ  383 (435)
Q Consensus       304 l~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~  383 (435)
                      ||||+++++|++|||+||||||+|++ +.||+||||||||||+|++ ++|+|+++|+|+++|+..+.+.+..       .
T Consensus        81 l~~k~~l~~g~~~vf~i~p~FR~E~~-~~rHl~EFtmlE~e~a~~~-~~d~m~~~e~l~~~i~~~~~~~~~~-------~  151 (342)
T d1e1oa2          81 LYLKRLVVGGFERVFEINRNFRNEGI-SVRHNPEFTMMELYMAYAD-YHDLIELTESLFRTLAQEVLGTTKV-------T  151 (342)
T ss_dssp             HHHHHHHHHTCCEEEEEEEEECCCCC-CC-CCSEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHHSSSEE-------E
T ss_pred             HHHHHHhhhcccceeeeccccccccc-cccchHHHHHHHHHHHhhh-hhhHHHhhhHHHHHHHHHHhCcchh-------h
Confidence            99999999999999999999999986 6799999999999999997 9999999999999999998765432       2


Q ss_pred             CCCccccCCCCCccccHHHHHHHH
Q 013856          384 YPFEPLKYKPKTLRLTFEEGVQML  407 (435)
Q Consensus       384 ~~~~~~~~~~p~~rit~~eai~ll  407 (435)
                      +.....++..||.|+++.+++..+
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~~  175 (342)
T d1e1oa2         152 YGEHVFDFGKPFEKLTMREAIKKY  175 (342)
T ss_dssp             ETTEEEETTSCCEEEEHHHHHHHH
T ss_pred             ccchhcccCCchhhhhHHHHHHHH
Confidence            233445566789999999998744

>d1l0wa3 d.104.1.1 (A:105-294,A:415-580) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-1 [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-1 [TaxId: 274]

Probab=100.00  E-value=6.8e-44  Score=359.34  Aligned_cols=164  Identities=29%  Similarity=0.436  Sum_probs=150.3

Q ss_pred             CCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChH
Q 013856          226 VNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQ  303 (435)
Q Consensus       226 ~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spq  303 (435)
                      +++|+||||||||||++..+++|++||.|+++||+||.++||+||+||+|++++++|++..|.+  +|++.++||++|||
T Consensus        18 ~~~~~Rl~~R~LdLR~~~~~~ilr~Rs~i~~~iR~ff~~~gfiEV~TP~L~~~~~eg~~~~~~~~~~~~~~~~yL~~Spe   97 (356)
T d1l0wa3          18 ASEELRLKYRYLDLRRRRMQENLRLRHRVIKAIWDFLDREGFVQVETPFLTKSTPEGARDFLVPYRHEPGLFYALPQSPQ   97 (356)
T ss_dssp             CCHHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSSBCCCSSSSCCCEEECTTSTTEEEECCSCSH
T ss_pred             cCHHHHhhchhhhhCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccccCCCcccccchhhhhcccccccCCCcChh
Confidence            5789999999999999999999999999999999999999999999999999999998887765  78999999999999


Q ss_pred             HHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhc
Q 013856          304 LHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQ  383 (435)
Q Consensus       304 l~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~  383 (435)
                      ||||+++++|++|||+||||||||++++ ||+|||||||||++|++ |+++|+++|+|++++++.+.+.           
T Consensus        98 l~lk~ll~~g~~~Vf~i~~~FRaE~~~t-~H~~EFtmLE~e~~~~~-~~~~m~~~E~li~~v~~~~~~~-----------  164 (356)
T d1l0wa3          98 LFKQMLMVAGLDRYFQIARCFRDEDLRA-DRQPDFTQLDLEMSFVE-VEDVLELNERLMAHVFREALGV-----------  164 (356)
T ss_dssp             HHHHHHHHTTCSEEEEEEEEECCCCCCS-SCCSEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHTCC-----------
T ss_pred             HHHHHhhhcccCcEEEEeccccccccCC-cchhhhhHHHHhhhHHH-HHHHHHHHHHHHHHHHHHHhCC-----------
Confidence            9999999999999999999999999854 89999999999999997 9999999999999999876532           


Q ss_pred             CCCccccCCCCCccccHHHHHHHHH
Q 013856          384 YPFEPLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       384 ~~~~~~~~~~p~~rit~~eai~ll~  408 (435)
                            .+..||+|++|.+|+..+.
T Consensus       165 ------~~~~~f~r~~~~~a~~~~~  183 (356)
T d1l0wa3         165 ------ELPLPFPRLSYEEAMERYG  183 (356)
T ss_dssp             ------CCCSSCCEEEHHHHHHHHS
T ss_pred             ------CCCCCCCcchHHhhHHHHh
Confidence                  1235899999999998653

>d1c0aa3 d.104.1.1 (A:107-287,A:421-585) Aspartyl-tRNA synthetase (AspRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5.9e-44  Score=358.47  Aligned_cols=163  Identities=26%  Similarity=0.405  Sum_probs=147.1

Q ss_pred             CCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChH
Q 013856          226 VNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQ  303 (435)
Q Consensus       226 ~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spq  303 (435)
                      .+.|+||||||||||++..+++|++||.|+++||+||.++||+||+||+|++++++|++..|..  .++|..+||+||||
T Consensus        10 ~~~e~Rl~~R~LdLr~~~~~~ilr~Rs~i~~~iR~ff~~~gFlEV~TPiL~~~~~~g~~~~~~~~~~~~~~~~~L~~Spe   89 (346)
T d1c0aa3          10 NTEEARLKYRYLDLRRPEMAQRLKTRAKITSLVRRFMDDHGFLDIETPMLTKATPEGARDYLVPSRVHKGKFYALPQSPQ   89 (346)
T ss_dssp             CCHHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCCSSBCCCSSSSCCCEEECSSSTTCEEECCSCSH
T ss_pred             CCHHHHhhchHHhhCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCCCCCccccccccccccCCCccccCCcCHH
Confidence            5678999999999999999999999999999999999999999999999999889988887665  45789999999999


Q ss_pred             HHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhc
Q 013856          304 LHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQ  383 (435)
Q Consensus       304 l~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~  383 (435)
                      ||||+++++|++|||+||||||||++ +.||+||||||||||+|++ |+++|+++|+|+++++..+.+.           
T Consensus        90 l~lk~ll~~g~~~Vf~i~~~FR~E~~-~~~H~~EFtmLE~e~a~~~-~~~~m~~~E~li~~l~~~~~~~-----------  156 (346)
T d1c0aa3          90 LFKQLLMMSGFDRYYQIVKCFRDEDL-RADRQPEFTQIDVETSFMT-APQVREVMEALVRHLWLEVKGV-----------  156 (346)
T ss_dssp             HHHHHHHHTTCCEEEEEEEEECCCCC-BTTBCSEEEEEEEEEESCC-HHHHHHHHHHHHHHHHHHHHSC-----------
T ss_pred             HHHHHHhhcCCCceEEEeeecccccc-CchhhhHhhhhcccccccc-HhHhHHHHHHHHHHHHHHHhCC-----------
Confidence            99999999999999999999999998 4567799999999999997 9999999999999999876531           


Q ss_pred             CCCccccCCCCCccccHHHHHHHHH
Q 013856          384 YPFEPLKYKPKTLRLTFEEGVQMLK  408 (435)
Q Consensus       384 ~~~~~~~~~~p~~rit~~eai~ll~  408 (435)
                            + ..+|++++|.+++..+.
T Consensus       157 ------~-~~~~~~~~~~e~~~~~~  174 (346)
T d1c0aa3         157 ------D-LGDFPVMTFAEAERRYG  174 (346)
T ss_dssp             ------C-CCSCCEEEHHHHHHHHS
T ss_pred             ------c-CCccceeeHHHHHHHhc
Confidence                  1 24789999999986543

>d1n9wa2 d.104.1.1 (A:111-414) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-2 [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-2 [TaxId: 274]

Probab=100.00  E-value=5.4e-42  Score=338.01  Aligned_cols=195  Identities=34%  Similarity=0.563  Sum_probs=135.6

Q ss_pred             cceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCC
Q 013856          234 NRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGD  313 (435)
Q Consensus       234 ~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g  313 (435)
                      |||||||++..+++|++||.|++++|+||.++||+||+||+|++++++|++++|.++|+++++||++||||||| ++++|
T Consensus         1 yR~ldlr~~~~~~~l~~Rs~i~~~iR~ff~~~gf~Ev~TP~l~~~~~e~~~~~f~~~~~~~~~~L~~Spel~k~-ll~~g   79 (304)
T d1n9wa2           1 YRYVTLRGEKARAPLKVQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEGGSGLFGVDYFEKRAYLAQSPQLYKQ-IMVGV   79 (304)
T ss_dssp             CHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTTCEECCCC----------------------------CHHHHH-HHHHH
T ss_pred             CCeEEecCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccCCCCCCCCCceECCcccccchhccccHHHHHH-Hhhcc
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999987 56788


Q ss_pred             CceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCC
Q 013856          314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP  393 (435)
Q Consensus       314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~  393 (435)
                      +++||+||||||+|++.+.||+|||||||||++|.++++++|+++|+++++++..+.+.+...+..++...+    ....
T Consensus        80 ~~~if~i~~~FR~ee~~~~rh~~EF~~le~~~~~~~~~~~~~~l~E~l~~~~~~~~~~~~~~~~~~~~~~~~----~~~~  155 (304)
T d1n9wa2          80 FERVYEVAPVWRMEEHHTSRHLNEYLSLDVEMGFIADEEDLMRLEEALLAEMLEEALNTAGDEIRLLGATWP----SFPQ  155 (304)
T ss_dssp             HSEEEEEEEC-------------CCEEEEEEEESCSSHHHHHHHHHHHHHHHHHHHHHHSHHHHHHTTCCCC----CCSS
T ss_pred             cccceeehhhcccccccccccccHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccee----cccc
Confidence            999999999999999888899999999999999987789999999999999999998888777766554322    2345


Q ss_pred             CCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHhc
Q 013856          394 KTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLE  434 (435)
Q Consensus       394 p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~vke  434 (435)
                      +++++++.||++++... ...++..|++.+.++.|++++.+
T Consensus       156 ~~~~~~~~e~~~~l~~~-~~~~~~~~~~~~~~~~l~~~~~~  195 (304)
T d1n9wa2         156 DIPRLTHAEAKRILKEE-LGYPVGQDLSEEAERLLGEYAKE  195 (304)
T ss_dssp             SCCEEEHHHHHHHHHHT-SCCCCCSSCCHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHH-hCCCcCCCccHHHHHHHHHHHHh
Confidence            78999999999988774 34556788999999999998864

>d1nnha_ d.104.1.1 (A:) Hypothetical protein PF1951 {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Hypothetical protein PF1951
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=100.00  E-value=3.6e-41  Score=330.85  Aligned_cols=157  Identities=21%  Similarity=0.308  Sum_probs=138.7

Q ss_pred             eeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C---CCCcceeeeccCCCceeeccChHHHHhhh
Q 013856          237 IDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S---EGGSAVFRLDYKGQSACLAQSPQLHKQMS  309 (435)
Q Consensus       237 Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~---egga~~F~~~~~~~~~~L~~Spql~lq~l  309 (435)
                      ||||++..+++|++||.|++++|+||.++||+||+||+|++..    +   +.|+.+|.++|||+++||++|||||||++
T Consensus         3 l~l~~~~~~~il~~Rs~i~~~iR~ff~~~gf~EV~tPil~~~~~~~~~~~~~~~~~~~~~~~~~~~~yL~~SPel~lk~l   82 (293)
T d1nnha_           3 VEIISREISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPAEVEIYGVKMRLTHSMILHKQLA   82 (293)
T ss_dssp             HHHHTSCCHHHHHHHHHHHHHHHHHHHHTTCEEECCCCEESCCCCCCSCTTCCCCCCCEEEETTEEEEECSCSHHHHHHH
T ss_pred             ccccCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEcCCcccccCCCCCCccccCccccccccCCCceeecccChhhhHHHH
Confidence            8999999999999999999999999999999999999997532    2   22566899999999999999999999999


Q ss_pred             ccCCCceeEEEecceecCc--CCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc
Q 013856          310 ICGDFGRVFETGPVFRAED--SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE  387 (435)
Q Consensus       310 i~~g~~rVfeIgp~FR~E~--s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~  387 (435)
                      |++|++|||+||||||||+  ++|+||||||||||||++|.+ |+|+|+++|+|++++++.+.+.+.       .     
T Consensus        83 la~g~~~Vf~I~~~FR~E~~~s~t~RH~~EFtmLE~e~~~~d-~~d~m~~~e~li~~~~~~~~~~~~-------~-----  149 (293)
T d1nnha_          83 IAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEVERAK-MEDIMRLIERLVYGLFRKAEEWTG-------R-----  149 (293)
T ss_dssp             HHTTCCEEEEEEEEECCCCGGGCSSSCCSEEEEEEEEEETCC-HHHHHHHHHHHHHHHHHHHHHHHS-------S-----
T ss_pred             HHhccccceeechhhhcCcccCCCCccchhhhhhcccccccc-HHHHHHHHHHHHHHHHHHHHHHhC-------c-----
Confidence            9999999999999999996  457899999999999999986 999999999999999988764332       2     


Q ss_pred             cccCCCCCccccHHHHHHH
Q 013856          388 PLKYKPKTLRLTFEEGVQM  406 (435)
Q Consensus       388 ~~~~~~p~~rit~~eai~l  406 (435)
                      .+....+|+|++|.||++.
T Consensus       150 ~~~~~~~~~~~~~~eal~~  168 (293)
T d1nnha_         150 EFPKTKRFEVFEYSEVLEE  168 (293)
T ss_dssp             CCCCCSSCEEEEHHHHHHH
T ss_pred             ccccCCccccccHHhhhcc
Confidence            2334568999999999863

>d1eova1 b.40.4.1 (A:71-204) Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.93  E-value=1.9e-25  Score=194.40  Aligned_cols=130  Identities=38%  Similarity=0.568  Sum_probs=111.3

Q ss_pred             CCCCccCCChhhhhccCCCCCCCccccccCcceeEeccccC-CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEE
Q 013856           60 LANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALNG-SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCL  138 (435)
Q Consensus        60 ~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~~~i~~l~~-~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv  138 (435)
                      ++++||++|+.+++..          +.+...++.+.++.. .+.|++|+|+|||+++|.+|++|+|++|||+++++||+
T Consensus         1 ~~~~yG~lp~~~s~~~----------~~~~~~r~~i~dl~~~~~~g~~V~v~GwV~~~R~~G~kl~F~~LrD~sg~iQ~~   70 (134)
T d1eova1           1 AKDNYGKLPLIQSRDS----------DRTGQKRVKFVDLDEAKDSDKEVLFRARVHNTRQQGATLAFLTLRQQASLIQGL   70 (134)
T ss_dssp             CCSSEEECCCCCCCGG----------GCCCCCCCCGGGCCTTTTTTCEEEEEEEEEEEEECSSSEEEEEEEETTEEEEEE
T ss_pred             ChhhcCCCcccccccc----------ccCCcEEEEeccccchhcCCCEEEEEEEEEEEEeCCCcEEEEEEEcCCCcEEEE
Confidence            3679999999876542          234566788888754 68899999999999999999889999999999999999


Q ss_pred             EeeCCCC-CCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCc-eeEEEEEeEEEEeecC-CCC
Q 013856          139 ATVKPDS-VSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVEVQIKKLYCVSRA-AKT  199 (435)
Q Consensus       139 ~~~~~~~-~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t-~~lEI~v~~i~vls~~-~~l  199 (435)
                      +..+... .+.+|++|+++|+.||+|.|+|+|.+++.++.+++ |++||++++|+|||+| .+|
T Consensus        71 v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~~~~~Ei~v~~i~vls~a~~~L  134 (134)
T d1eova1          71 VKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKSATVQNLEIHITKIYTISETPEAL  134 (134)
T ss_dssp             EECCSSSSSCHHHHHHHTTCCTTCEEEEEEEEEECSSCCTTSSEEEEEEEEEEEEEEECCCSSC
T ss_pred             EEeccccchhHHHHHHHhcCCCCCEEEEEEEEEeCCccCCCCCCCcEEEEEEEEEEEeCCCCCC
Confidence            9976433 56789999999999999999999999888877765 7799999999999999 664

>d1e1oa1 b.40.4.1 (A:11-153) Lysyl-tRNA synthetase (LysRS) {Escherichia coli, gene lysU [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Lysyl-tRNA synthetase (LysRS)
species: Escherichia coli, gene lysU [TaxId: 562]

Probab=99.86  E-value=4.3e-22  Score=174.67  Aligned_cols=116  Identities=17%  Similarity=0.248  Sum_probs=94.5

Q ss_pred             CCCCCCCccccccCccee-EeccccC---CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856           76 NDPQTGKWSEAVSGREWT-EVGALNG---SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV  151 (435)
Q Consensus        76 ~~pyp~~~~~~~~~~~~~-~i~~l~~---~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~  151 (435)
                      ++||||+|+++++..++. .+..+..   ...+..|+|+|||+++|.+| |++|++|+|++++||++++.+  .++++.+
T Consensus        22 G~pYP~~~~~t~~~~ei~~~~~~~~~~~~~~~~~~V~vaGRI~~~R~~G-k~~F~~i~D~~g~iQi~~~~~--~~~~~~~   98 (143)
T d1e1oa1          22 GVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMG-KASFVTLQDVGGRIQLYVARD--SLPEGVY   98 (143)
T ss_dssp             SCSSCCCCCCSCCHHHHHHHHTTCCHHHHHHHCCEEEEEEEEEEEEEET-TEEEEEEEETTEEEEEEEETT--TSSTTHH
T ss_pred             CCCCCCCCcCCccHHHHHHHHhcccchhhhccCceEEEEEEEEEEcccC-CeeEEEEEeCCceEEEEEccc--cchhhhH
Confidence            469999999998875532 2222211   23477999999999999999 899999999999999999864  2444444


Q ss_pred             -HHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCC
Q 013856          152 -RFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTP  200 (435)
Q Consensus       152 -~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP  200 (435)
                       .+.+.+..||+|.|+|.+.+      +.+|+++|.++++.+|++| +|||
T Consensus        99 ~~~~k~ld~GDiIgv~G~~~~------TktGElsi~~~~~~lLsK~l~PLP  143 (143)
T d1e1oa1          99 NDQFKKWDLGDIIGARGTLFK------TQTGELSIHCTELRLLTKALRPLP  143 (143)
T ss_dssp             HHTGGGCCTTCEEEEEEEEEE------CTTCCEEEEEEEEEEEECCSSCCC
T ss_pred             HHHHhcCCcccEEEeecccEE------CCCCcEEEEeeEEEEeccccCCCC
Confidence             46689999999999999976      3468999999999999999 9998

>d1b8aa1 b.40.4.1 (A:1-103) Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococcus kodakaraensis [TaxId: 311400]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Archaeon Pyrococcus kodakaraensis [TaxId: 311400]

Probab=99.83  E-value=2.1e-20  Score=155.09  Aligned_cols=97  Identities=28%  Similarity=0.414  Sum_probs=86.6

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|.+.+.|++|+|+|||+++|.+| +++|++|||+++.||||+..+  .++++++++++.|+.||+|.|+|+|..+
T Consensus         5 h~~~el~~~~~G~~V~v~Gwv~~~R~~g-~i~Fi~LrD~sg~iQ~v~~~~--~~~~~~~~~~~~l~~es~v~V~G~v~~~   81 (103)
T d1b8aa1           5 HYSSEITEELNGQKVKVAGWVWEVKDLG-GIKFLWIRDRDGIVQITAPKK--KVDPELFKLIPKLRSEDVVAVEGVVNFT   81 (103)
T ss_dssp             CCGGGCCGGGTTCEEEEEEEEEEEEEET-TEEEEEEEETTEEEEEEEETT--TSCHHHHHHGGGCCTTCEEEEEEEEEEC
T ss_pred             cChhhCChhHCCCEEEEEEEEehhccCC-CcEEEEEEcCCEeeeEEEecc--ccchhhhhHHhhCCcceEEEEEEEEEEC
Confidence            4678898889999999999999999999 899999999999999999854  4678999999999999999999999875


Q ss_pred             CccCCCCceeEEEEEeEEEEeecC
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      ++    .++++||++++|.|||++
T Consensus        82 ~~----~~~~iEi~v~~i~ils~a  101 (103)
T d1b8aa1          82 PK----AKLGFEILPEKIVVLNRA  101 (103)
T ss_dssp             TT----STTSEEEEEEEEEEEECB
T ss_pred             CC----CCccEEEEeeEEEEEEec
Confidence            42    235699999999999987

>d1n9wa1 b.40.4.1 (A:1-93) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-2 [TaxId: 274]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-2 [TaxId: 274]

Probab=99.80  E-value=2.1e-19  Score=146.27  Aligned_cols=90  Identities=31%  Similarity=0.369  Sum_probs=78.5

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|. ++.|++|+|+|||+++|.+| +++|++|||+++.+||+++..            ..+..||+|.|+|+|...
T Consensus         3 ~~I~dl~-~~~g~~V~v~GwV~~~R~~g-k~~Fi~LrD~sg~iQ~v~~~~------------~~~~~e~~v~v~G~v~~~   68 (93)
T d1n9wa1           3 VLVRDLK-AHVGQEVELLGFLHWRRDLG-RIQFLLLRDRSGVVQVVTGGL------------KLPLPESALRVRGLVVEN   68 (93)
T ss_dssp             CCGGGGG-GCTTSEEEEEEEEEEEEECS-SEEEEEEEETTEEEEEEEESC------------CCCCTTCEEEEEEEEEEC
T ss_pred             EEhHHhh-hcCCCEEEEEEEEEeEEeCC-CcEEEEEEcCCccceEEeccc------------cccccceEEEEEEEEEEC
Confidence            3567775 57899999999999999999 899999999999999999854            246789999999999875


Q ss_pred             CccCCCCceeEEEEEeEEEEeecC-CCCC
Q 013856          173 DVEIKGATQQVEVQIKKLYCVSRA-AKTP  200 (435)
Q Consensus       173 ~~~~~~~t~~lEI~v~~i~vls~~-~~lP  200 (435)
                      +    ..+|++||+++++.+||+| .+||
T Consensus        69 ~----~~~~~~Ei~v~~i~il~~a~~plP   93 (93)
T d1n9wa1          69 A----KAPGGLEVQAKEVEVLSPALEPTP   93 (93)
T ss_dssp             T----TSTTSEEEEEEEEEEEECCCSCCC
T ss_pred             C----CCCCCEEEEEeEEEEEecCCCCCC
Confidence            4    2357899999999999999 8888

>d1l0wa1 b.40.4.1 (A:1-104) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-1 [TaxId: 274]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-1 [TaxId: 274]

Probab=99.79  E-value=2.6e-19  Score=148.56  Aligned_cols=98  Identities=27%  Similarity=0.346  Sum_probs=84.4

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|.+++.|++|+|+|||+++|.+| +++|++|||+++.|||++....     +.++.+..|+.||+|.|+|+|.+.
T Consensus         5 h~~geL~~~~~g~~V~l~GWV~~~R~~g-~i~Fi~LRD~~G~iQ~v~~~~~-----~~~~~~~~l~~Es~I~V~G~V~~r   78 (104)
T d1l0wa1           5 HYAGSLRETHVGEEVVLEGWVNRRRDLG-GLIFLDLRDREGLVQLVAHPAS-----PAYATAERVRPEWVVRAKGLVRLR   78 (104)
T ss_dssp             SCGGGCCGGGTTCEEEEEEEEEEEEECS-SCEEEEEEETTEEEEEEECTTS-----TTHHHHTTCCTTCEEEEEEEEEEC
T ss_pred             cccccCChHHCCCEEEEEEEEEehhcCC-CeEEEEEECCCCceEEecccch-----hHHHHHhhcCcccEEEEEEEEeeC
Confidence            4678899899999999999999999999 9999999999999999997542     346778899999999999999754


Q ss_pred             Cc-cCCCCceeEEEEEeEEEEeecC
Q 013856          173 DV-EIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       173 ~~-~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      +. ..+..+|++||+++++.|||+|
T Consensus        79 ~~~n~~~~tG~iEi~v~~i~iL~~a  103 (104)
T d1l0wa1          79 PEPNPRLATGRVEVELSALEVLAEA  103 (104)
T ss_dssp             SSCCTTSTTTTEEEEEEEEEEEECC
T ss_pred             CccCCCCCCCCEEEEEeEEEEEEcC
Confidence            32 2334568899999999999987

>d1c0aa1 b.40.4.1 (A:1-106) Aspartyl-tRNA synthetase (AspRS) {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Escherichia coli [TaxId: 562]

Probab=99.79  E-value=3.6e-19  Score=148.27  Aligned_cols=99  Identities=29%  Similarity=0.380  Sum_probs=84.6

Q ss_pred             eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP  172 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~  172 (435)
                      +.|++|...+.|++|+|+|||+++|.+| +++|++|||+++.+||++...    ..++++.+..|+.||+|.|+|+|...
T Consensus         4 h~cgeL~~~~~g~~V~v~GWv~~~R~~g-~i~Fi~LRD~~G~~Q~v~~~~----~~~~~~~~~~l~~Es~v~V~G~V~~r   78 (106)
T d1c0aa1           4 EYCGQLRLSHVGQQVTLCGWVNRRRDLG-SLIFIDMRDREGIVQVFFDPD----RADALKLASELRNEFCIQVTGTVRAR   78 (106)
T ss_dssp             SCGGGCCGGGTTCEEEEEEEEEEEEECS-SCEEEEEEETTEEEEEEECGG----GHHHHHHHTTCCTTCEEEEEEEEEEC
T ss_pred             eEcccCChHHCCCEEEEEEEEEEeeeCC-CcEEEEEEcCCeEEeEEeccc----chhHHHHHHhhCccceEEEEeEEecc
Confidence            4688898889999999999999999999 899999999999999999754    24567788899999999999998753


Q ss_pred             Cc-c--CCCCceeEEEEEeEEEEeecC
Q 013856          173 DV-E--IKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       173 ~~-~--~~~~t~~lEI~v~~i~vls~~  196 (435)
                      +. .  .+..+|++||++++|.||++|
T Consensus        79 ~~~~~n~~~~tg~iEi~v~~i~vl~~a  105 (106)
T d1c0aa1          79 DEKNINRDMATGEIEVLASSLTIINRA  105 (106)
T ss_dssp             CTTTCCTTSTTTTEEEEEEEEEEEECC
T ss_pred             CccccCCCCCCCcEEEEEeEEEEEeCC
Confidence            32 1  223457899999999999986

>d1jjca_ d.104.1.1 (A:) Phenyl-tRNA synthetase (PheRS) alpha subunit, PheS {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Phenyl-tRNA synthetase (PheRS) alpha subunit, PheS
species: Thermus thermophilus [TaxId: 274]

Probab=97.99  E-value=9.7e-06  Score=76.06  Aligned_cols=112  Identities=16%  Similarity=0.167  Sum_probs=74.9

Q ss_pred             HHHHHHHHHhhcCCeeeecCceeeec--------CC-CCCcc----eeeecc------------CCCceeec--cChHHH
Q 013856          253 QVGNIFRQFLLSENFVEIHTPKLIAG--------SS-EGGSA----VFRLDY------------KGQSACLA--QSPQLH  305 (435)
Q Consensus       253 ~i~~~~R~fl~~~gF~EV~TP~l~~~--------~~-egga~----~F~~~~------------~~~~~~L~--~Spql~  305 (435)
                      .+++.|+++|.+.||-++..|.+.+.        .+ +.-|.    .|-++.            .....-||  +|+-..
T Consensus        21 ~~~~~i~~if~~~GF~~~~gp~ies~~~NFDaLn~P~dHPAR~~~DTfYi~~~~~~~~~~~~~~~~~~~lLRTHTS~~q~  100 (266)
T d1jjca_          21 LMERELVEIFRALGYQAVEGPEVESEFFNFDALNIPEHHPARDMWDTFWLTGEGFRLEGPLGEEVEGRLLLRTHTSPMQV  100 (266)
T ss_dssp             HHHHHHHHHHHTTTCEECCCCSEEEHHHHTGGGTCCTTSGGGGGSCCCBEECSSCCEECTTSCEECSCEEECSSSTHHHH
T ss_pred             HHHHHHHHHHHHcCCeEeeCCccccchhhhhcccCCcccchhcccceEEEecccccccCcccccchhhhhhccCCcHHHH
Confidence            45778888999999999999987652        01 11111    233321            01234566  565433


Q ss_pred             HhhhccCCC--ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856          306 KQMSICGDF--GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD  367 (435)
Q Consensus       306 lq~li~~g~--~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~  367 (435)
                      ..|  ..+.  -|++.+|+|||+|.. +.+|+|+|.|+|.-+... -...+++..++.+++.++.
T Consensus       101 r~~--~~~~~p~~~~~~g~VyRrd~i-D~tH~p~FhQ~eg~~vd~~~~~~~Lk~~l~~~~~~~f~  162 (266)
T d1jjca_         101 RYM--VAHTPPFRIVVPGRVFRFEQT-DATHEAVFHQLEGLVVGEGIAMAHLKGAIYELAQALFG  162 (266)
T ss_dssp             HHH--HHSCSSEEEEEEEEEECCSCC-CSSCCSEEEEEEEEEEETTCCHHHHHHHHHHHHHHHHC
T ss_pred             HHH--hccCCCceEEecccceecCCC-CCcccccceeeeeeeccccccHHHHHHHHHHHHHHhcC
Confidence            332  2233  489999999999994 999999999999865432 1477888888888888774

>d1z7ma1 d.104.1.1 (A:6-323) ATP phosphoribosyltransferase regulatory subunit HisZ {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: ATP phosphoribosyltransferase regulatory subunit HisZ
species: Lactococcus lactis [TaxId: 1358]

Probab=97.90  E-value=1.7e-05  Score=75.62  Aligned_cols=117  Identities=19%  Similarity=0.226  Sum_probs=73.5

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC------CCCC----cceeee-ccCCCceeec--cChHH---HHhhh
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS------SEGG----SAVFRL-DYKGQSACLA--QSPQL---HKQMS  309 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~------~egg----a~~F~~-~~~~~~~~L~--~Spql---~lq~l  309 (435)
                      .-.+.+..|...+++.|..+||.+|.||++-...      ..++    -+.|++ +.-|+.+.||  ..+++   +.+. 
T Consensus        13 ~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~d~~~~~~~~~~~~~~~~~~~~~d~~g~~l~LRpD~T~~iaR~~~~~-   91 (318)
T d1z7ma1          13 NQVKSLRQIEGRLRKLFSLKNYQEVMPPSFEYTQLYTALESNGKTFNQEKMFQFIKHEGQSITLRYDFTLPLVRLYSQI-   91 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEHHHHHHHHCSSSCCCTTSCCEEECTTCCEEEECCCSHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHhhccCCCcccccccceeEeecCCccEEEeeccccchHHHHHHHh-
Confidence            4456777899999999999999999999985422      1111    124554 4457888886  23443   3321 


Q ss_pred             ccCCCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          310 ICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       310 i~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      -.....|+|++|+|||.+.. ...+..||+|+.+|+-..++.   -|++.++-+++..
T Consensus        92 ~~~~~~r~~Y~g~vfR~~~~-~~~r~rE~~Q~g~EiiG~~~~~ad~Eii~l~~e~l~~  148 (318)
T d1z7ma1          92 KDSTSARYSYFGKIFRKEKR-HKGRSTENYQIGIELFGESADKSELEILSLALQVIEQ  148 (318)
T ss_dssp             CSCCCEEEEEEEECCCCCC--------CCEEEEEEEESSCHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCcccccccceeEEccc-cccccchhhhhheeccccchhhHHHHHHHHHHHHHHH
Confidence            12345699999999999985 444567999999997665421   2345555554443

>d1qf6a4 d.104.1.1 (A:242-532) Threonyl-tRNA synthetase (ThrRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Threonyl-tRNA synthetase (ThrRS)
species: Escherichia coli [TaxId: 562]

Probab=97.86  E-value=1.2e-05  Score=76.43  Aligned_cols=115  Identities=17%  Similarity=0.174  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC-----CcceeeeccCCCceeeccChHHHHhhhccCC-----
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG-----GSAVFRLDYKGQSACLAQSPQLHKQMSICGD-----  313 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg-----ga~~F~~~~~~~~~~L~~Spql~lq~li~~g-----  313 (435)
                      =.+++.+|.+.+|+.+.+.||.||.||.|.....   .|     +.+.|.+.--+..++|+-..+-..=.+....     
T Consensus        29 G~~l~~~L~~~i~e~~~~~G~~eV~~P~L~~~~l~~~sG~~~~~~~~~~~~~~~~~~~~L~Pt~e~~~~~~~~~~~~sy~  108 (291)
T d1qf6a4          29 GWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYR  108 (291)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEECCCCSEEETHHHHHHSHHHHHGGGCEEEEETTEEEEECSSSHHHHHHHHTTSCEEGG
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEEEEcccccchhHHhhhchhhhccchhccccccchhhcccccCcHHHHHHHHccccchh
Confidence            3577899999999999999999999999987531   11     3345666666788999988764443333221     


Q ss_pred             -C-ceeEEEecceecCcC---CCCccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          314 -F-GRVFETGPVFRAEDS---YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       314 -~-~rVfeIgp~FR~E~s---~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                       + -|+|++++|||+|.+   .+..=..||+|.|.+. |.. -++.++.+.+++.
T Consensus       109 ~LPl~~~q~~~~fR~E~~~~~~Gl~R~reF~~~d~h~-f~~-~e~~~~e~~~~~~  161 (291)
T d1qf6a4         109 DLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHI-FCT-EEQIRDEVNGCIR  161 (291)
T ss_dssp             GCSEEEEEEEEEECCCCGGGCBTTTBCSEEEEEEEEE-EEC-GGGHHHHHHHHHH
T ss_pred             hcCeeEeecceeeecccccccccccccccceecccee-Eec-chhhHHHHHHHHH
Confidence             2 389999999999953   1333457999999988 443 2455555555543

>d1nyra4 d.104.1.1 (A:242-532) Threonyl-tRNA synthetase (ThrRS) {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Threonyl-tRNA synthetase (ThrRS)
species: Staphylococcus aureus [TaxId: 1280]

Probab=97.78  E-value=1.9e-05  Score=75.04  Aligned_cols=115  Identities=17%  Similarity=0.107  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC---C-----Ccceeeecc--CCCceeeccChHHHHhhhccCC---
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE---G-----GSAVFRLDY--KGQSACLAQSPQLHKQMSICGD---  313 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e---g-----ga~~F~~~~--~~~~~~L~~Spql~lq~li~~g---  313 (435)
                      -.+++.+|.+.+|+.+.+.||.||.||.|.....-   |     +.+.|.+..  -+.+++|+-..+-..-.+....   
T Consensus        29 G~~l~~~L~~~~~~~~~~~G~~eV~~P~l~~~~l~~~sG~~~~~~~~~~~~~~~~~~~~~~L~pt~e~~~~~~~~~~~~s  108 (291)
T d1nyra4          29 GATIRREIERYIVDKEVSMGYDHVYTPVLANVDLYKTSGHWDHYQEDMFPPMQLDETESMVLRPMNCPHHMMIYANKPHS  108 (291)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTEEECBCCSEEETHHHHHHTHHHHCTTSSCCCEEETTTEEEEECSSSHHHHHHHHHTSCCB
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEEEECccccchhHhhhhccccccccceEEEeeccccccccccccchhHHHHhhhcEecc
Confidence            45888999999999999999999999999875321   1     222444322  3567899988776665433221   


Q ss_pred             ---C-ceeEEEecceecCcCCC---CccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          314 ---F-GRVFETGPVFRAEDSYT---HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       314 ---~-~rVfeIgp~FR~E~s~t---~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                         + =|+|++++|||+|.+.+   ..=.-+|+|.|.+.- +. -++..+.+++++.
T Consensus       109 y~dLPlr~~~~~~~fR~E~~~~~~Gl~Rvr~F~~~d~~~f-~~-~eq~~~e~~~~~~  163 (291)
T d1nyra4         109 YRELPIRIAELGTMHRYEASGAVSGLQRVRGMTLNDSHIF-VR-PDQIKEEFKRVVN  163 (291)
T ss_dssp             GGGCCEEEEEEEEEECCCCTTTCBTTTBCSEEEEEEEEEE-EC-GGGHHHHHHHHHH
T ss_pred             ccccceEEeeccceeecCCCcccccccceeeeeeeeheee-cC-CcccHHHHHHHHH
Confidence               3 29999999999998532   223459999998753 32 3455554444443

>d1nj8a3 d.104.1.1 (A:0-267) Prolyl-tRNA synthetase (ProRS) {Archaeon (Methanocaldococcus jannaschii) [TaxId: 2190]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Prolyl-tRNA synthetase (ProRS)
species: Archaeon (Methanocaldococcus jannaschii) [TaxId: 2190]

Probab=97.60  E-value=0.00017  Score=67.40  Aligned_cols=114  Identities=19%  Similarity=0.209  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----CCC-----CcceeeeccCC-----CceeeccChHH-----HHh
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----SEG-----GSAVFRLDYKG-----QSACLAQSPQL-----HKQ  307 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~eg-----ga~~F~~~~~~-----~~~~L~~Spql-----~lq  307 (435)
                      =++++..|.+.+|+.+.+.||.||.||.|.+..    +.+     +-+.|.+.+-+     .+++|+...+-     |+.
T Consensus        34 G~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~~ks~~~~~~~~~~~~~~~~~~~~~~~~~~~L~P~~~~~~~~i~~~  113 (268)
T d1nj8a3          34 GFKIRRYTFEIIRNLLDESGHDEALFPMLIPEDLLAKEAEHIKGFEDEVYWVTHGGKTQLDVKLALRPTSETPIYYMMKL  113 (268)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEECBCCSEEEHHHHHHHCSSSGGGGGGCEEEEESSSSEEEEEEEECSSSHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHcCCeEEeehhhhhhHhhhccCCCccccccceeEEeccccccchhhhhcccCCCchhHHhhhh
Confidence            447899999999999999999999999987532    111     12245554433     35889877643     443


Q ss_pred             hhccC-CC-ceeEEEecceecCcCCCCc---cccchhhhe-eeecccccHHHHHHHHHHHH
Q 013856          308 MSICG-DF-GRVFETGPVFRAEDSYTHR---HLCEFTGLD-VEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       308 ~li~~-g~-~rVfeIgp~FR~E~s~t~r---Hl~EFt~lE-~e~a~~~~~~d~m~~~e~l~  362 (435)
                      ...+- .+ =|+|++|+|||+|.+ ..+   =.-||++.| .+....+ -.+..+..+.++
T Consensus       114 ~~~Syr~LP~r~~e~~~~fR~E~~-~~~GllR~reF~~~dd~~~~~~~-~~~~~~~~~~~~  172 (268)
T d1nj8a3         114 WVKVHTDLPIKIYQIVNTFRYETK-HTRPLIRLREIMTFKEAHTAHST-KEEAENQVKEAI  172 (268)
T ss_dssp             TCCBTTSCCCCEEEEECCBCCCCS-CCBTTTBCSBCSCEEEEEEEESS-HHHHHHHHHHHH
T ss_pred             hccchhhhheEEeecccccccccc-ccccceeEEEEeeechhceeccc-cchhhHHHHHHH
Confidence            33221 22 399999999999954 221   235897555 5554444 455555444443

>d1qe0a2 d.104.1.1 (A:1-325) Histidyl-tRNA synthetase (HisRS) {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Staphylococcus aureus [TaxId: 1280]

Probab=97.59  E-value=4.2e-05  Score=72.94  Aligned_cols=118  Identities=21%  Similarity=0.263  Sum_probs=72.2

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC----CCCc------ceeee-ccCCCceeeccChHHHHhhhcc---
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS----EGGS------AVFRL-DYKGQSACLAQSPQLHKQMSIC---  311 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~----egga------~~F~~-~~~~~~~~L~~Spql~lq~li~---  311 (435)
                      .-.+.|..|.+.+++.|...||.+|.||++-...+    -|..      ..|.+ +..+....|+..+-.-..++++   
T Consensus        14 ~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~l~~~~g~~~~~~~~~~~~~~d~~~~~~~lr~d~t~~~~r~~~~~~   93 (325)
T d1qe0a2          14 EDSKKWRYIENQLDELMTFYNYKEIRTPIFESTDLFARGVGDSTDVVQKEMYTFKDKGDRSITLRPEGTAAVVRSYIEHK   93 (325)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCEECBCCSEEEHHHHCC-----------CCEEECHHHHCCEEECSCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeEeeCcccccHHHhccccCCchhHHHHHHhhhhccccccccccccccccHHHHHHhhc
Confidence            34578899999999999999999999999865421    1111      12333 2245667777554433333222   


Q ss_pred             --CCC---ceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          312 --GDF---GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       312 --~g~---~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                        +..   -|+|.+|+|||.+.....|+ -||||+.+|.-..++.   -+++.++-+.+..
T Consensus        94 ~~~~~~~p~R~~Y~g~VfR~~~~~~~~~-rE~~Q~G~EiiG~~~~~ad~Eii~l~~~~l~~  153 (325)
T d1qe0a2          94 MQGNPNQPIKLYYNGPMFRYERKQKGRY-RQFNQFGVEAIGAENPSVDAEVLAMVMHIYQS  153 (325)
T ss_dssp             GGGCSSCSEEEEEEEEEECC-------C-CEEEEEEEEEESCCCHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhheecceeeeccccCCcc-ceeeecceeecCCcCcHHHHHHHHHHHHHHHh
Confidence              112   39999999999998644444 6999999998776543   2455555555543

>d1hc7a2 d.104.1.1 (A:5-276) Prolyl-tRNA synthetase (ProRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Prolyl-tRNA synthetase (ProRS)
species: Thermus thermophilus [TaxId: 274]

Probab=97.52  E-value=0.0002  Score=66.05  Aligned_cols=116  Identities=11%  Similarity=0.070  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C--CC------cceeeecc-----CCCceeeccChH-----HHHh
Q 013856          247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E--GG------SAVFRLDY-----KGQSACLAQSPQ-----LHKQ  307 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e--gg------a~~F~~~~-----~~~~~~L~~Spq-----l~lq  307 (435)
                      =.+++.+|.+.+++.+.+.||.||.||.|..... .  |+      .+.|.+..     -+.+++|+-+.+     +|..
T Consensus        39 G~~l~~~l~~~~~~~~~~~G~~eV~~P~l~~~~l~~~sg~~~~~~~~~m~~~~~~~~~~~~~~~~L~pt~e~~~~~~~~~  118 (272)
T d1hc7a2          39 GYAIWENIQQVLDRMFKETGHQNAYFPLFIPMSFLRKEAEHVEGFSPELAVVTHAGGEELEEPLAVRPTSETVIGYMWSK  118 (272)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEECBCCSEEESTTC---------CCTTCEEEEEESSSEEEEEEEECSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCeEEeeccccchHHhhhcccchhhcccceeeeeccccccccchhhcccccccceeehhhc
Confidence            4689999999999999999999999998876542 1  11      12344432     235688987776     4444


Q ss_pred             hhcc-CCC-ceeEEEecceecCcCCCC-ccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856          308 MSIC-GDF-GRVFETGPVFRAEDSYTH-RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV  363 (435)
Q Consensus       308 ~li~-~g~-~rVfeIgp~FR~E~s~t~-rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~  363 (435)
                      .... ..+ -|+|++++|||+|.+... .=.-+|.+.+.++-..+ ..+.....+.++.
T Consensus       119 ~~~s~~~LPlr~~~~~~~fR~E~~~~g~~r~r~~~~~~~~~~~~~-~~~~~~~~~~~~~  176 (272)
T d1hc7a2         119 WIRSWRDLPQLLNQWGNVVRWEMRTRPFLRTSEFLWQEGHTAHAT-REEAEEEVRRMLS  176 (272)
T ss_dssp             HCCBGGGCCEEEEEEEEEECCCSSCBTTTBCSEEEEEEEEEEESS-HHHHHHHHHHHHH
T ss_pred             eeccccccceeeeecccccccccccccccceEEEEEEhhhhhhcc-cccchhHHHHHHH
Confidence            3322 122 399999999999975221 11246888899877665 5555555554443

>d1wu7a2 d.104.1.1 (A:3-329) Histidyl-tRNA synthetase (HisRS) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=97.50  E-value=0.00022  Score=67.97  Aligned_cols=104  Identities=14%  Similarity=0.146  Sum_probs=71.8

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCC----cceeee-ccCCCceeec--cChHHHHhhhccCC--
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGG----SAVFRL-DYKGQSACLA--QSPQLHKQMSICGD--  313 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egg----a~~F~~-~~~~~~~~L~--~Spql~lq~li~~g--  313 (435)
                      .-...+..|...+++.|.+.||.+|.||++-...+   ..|    .+.|++ +--|+.+.||  ..|+.-.-.+-..+  
T Consensus        16 ~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~~~~~~g~~~~~~~~~f~D~~g~~l~LRpD~T~~iar~~~~~~~~~   95 (327)
T d1wu7a2          16 EDMDVEKFIFKTAEEAAEAFGFRRIDFPSLEYLDLYRIKSGEELLQQTYSFVDKGGREVTLIPEATPSTVRMVTSRKDLQ   95 (327)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEECBCCSEEETHHHHTTSCTTGGGGSCEEECTTSCEEEECSCSHHHHHHHHTTCTTCC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCeEeECCccchHhhccccCchhHHHHHhhhhcccchhhcccccccchhhhHhhhhhhcc
Confidence            45677889999999999999999999998855431   112    225654 4467888887  23333221111112  


Q ss_pred             C-ceeEEEecceecCcCCCCccccchhhheeeeccccc
Q 013856          314 F-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH  350 (435)
Q Consensus       314 ~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~  350 (435)
                      . -|+|++|+|||.+.. ...+.-||+|+.+|.-..++
T Consensus        96 ~p~k~~y~g~VfR~~~~-~~g~~re~~Q~G~EiiG~~~  132 (327)
T d1wu7a2          96 RPLRWYSFPKVWRYEEP-QAGRYREHYQFNADIFGSDS  132 (327)
T ss_dssp             SSEEEEECCEEECCCCS-CSSCCSEEEEEEEEEESCCS
T ss_pred             ccceeeccCcceecccc-ccCCcchhhhhhhhhcCCcc
Confidence            2 499999999999985 44456799999999876653

>d1b76a2 d.104.1.1 (A:1-394) Glycyl-tRNA synthetase (GlyRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Glycyl-tRNA synthetase (GlyRS)
species: Thermus thermophilus [TaxId: 274]

Probab=97.24  E-value=0.0003  Score=67.61  Aligned_cols=119  Identities=13%  Similarity=0.150  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHHHHHHh--hcCCeeeecCceeeecCC---CCCcce-----------------------eeec-----cCC
Q 013856          247 IFRIQSQVGNIFRQFL--LSENFVEIHTPKLIAGSS---EGGSAV-----------------------FRLD-----YKG  293 (435)
Q Consensus       247 i~~~rs~i~~~~R~fl--~~~gF~EV~TP~l~~~~~---egga~~-----------------------F~~~-----~~~  293 (435)
                      =.++|..|.+.+|+.+  .+.|+.||.||+|.+...   -|.-..                       |.++     .-+
T Consensus        38 G~~l~~~i~~~wr~~~v~~~~~~~ev~tp~i~~~~lw~~SGH~~~f~d~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (331)
T d1b76a2          38 GVELKNNLKQAWWRRNVYERDDMEGLDASVLTHRLVLHYSGHEATFADPMVDNAKARYWTPPRYFNMMFQDLRGPRGGRG  117 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCSSEEEEBCCSEEEHHHHHHTSHHHHCEEEECBSSSCBCCCCCEEEECCEEEECSSSCCGG
T ss_pred             HHHHHHHHHHHHHHHHHhccCCeEEEeccccCChHHhccCccccccCCceeeecccccccCccchhhccccccccccccC
Confidence            4578999999999986  467999999999987430   111111                       1111     113


Q ss_pred             Cceeec--cChHHHHhh---h--ccCCCc-eeEEEecceecCcCCCCc---cccchhhheeeecccccHHHHHHHHHHHH
Q 013856          294 QSACLA--QSPQLHKQM---S--ICGDFG-RVFETGPVFRAEDSYTHR---HLCEFTGLDVEMEIKKHYSEVMDIVDCLF  362 (435)
Q Consensus       294 ~~~~L~--~Spql~lq~---l--i~~g~~-rVfeIgp~FR~E~s~t~r---Hl~EFt~lE~e~a~~~~~~d~m~~~e~l~  362 (435)
                      ...||+  .++..+...   .  .-..|. |+||||.|||+|-+ ...   =.-||||.|.+.=..  -++..+.....+
T Consensus       118 ~~~~lr~~t~~~~~~~~~~~~~~syk~LP~~~aqig~~fR~E~s-~~~gl~RvReFtq~D~~~F~~--~~q~~~~~~~~~  194 (331)
T d1b76a2         118 LLAYLRPETAQGIFVNFKNVLDATSRKLGFGIAQIGKAFRNEIT-PRNFIFRVREFEQMEIEYFVR--PGEDEYWHRYWV  194 (331)
T ss_dssp             GEEEECSCTHHHHHTTHHHHHHHHTCCSSEEEEEEEEEECCCSS-CCTTTTSCSEEEEEEEEEEEC--GGGHHHHHHHHH
T ss_pred             CcccccCcchhhHHHHHHhHHhccccccchhhhhccceeccccc-ccccccccchhhhhhhhhhcC--CcchhHHHHHHH
Confidence            556777  333333322   1  112332 89999999999975 222   235999999987443  245555555544


Q ss_pred             HHHhHH
Q 013856          363 VTIFDS  368 (435)
Q Consensus       363 ~~i~~~  368 (435)
                      ..+.+.
T Consensus       195 ~~~~~~  200 (331)
T d1b76a2         195 EERLKW  200 (331)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>d1seta2 d.104.1.1 (A:111-421) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=97.09  E-value=0.0017  Score=61.86  Aligned_cols=118  Identities=12%  Similarity=0.160  Sum_probs=78.4

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-CC-C------cceeeeccCCCceeeccChHHHHhhhcc-----
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-EG-G------SAVFRLDYKGQSACLAQSPQLHKQMSIC-----  311 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-eg-g------a~~F~~~~~~~~~~L~~Spql~lq~li~-----  311 (435)
                      ....++.-++++++.+++.++||.||.+|.|..... +| |      .+.|.+  -+.+.||.-..+..+=.+..     
T Consensus        53 g~~a~Le~AL~~~~ld~~~~~gy~~v~~P~lv~~~~~~~~G~~p~f~~~~y~~--~~~~~~LipTsE~~l~~~~~~~i~~  130 (311)
T d1seta2          53 GDLALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAI--AETDLYLTGTAEVVLNALHSGEILP  130 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEEEECCSEEEHHHHHHHTCTTTTGGGSCBB--TTSSEEECSSTHHHHHHTTTTCEEE
T ss_pred             CHHHHHHHHHHHHHHHhhhcccceEEeechhhccchhhhcccccccccccccc--cccceeecccccchhhhhhhhhhhh
Confidence            466778889999999999999999999999987532 11 1      113433  35678998665554432221     


Q ss_pred             -CCCc-eeEEEecceecCcCC------CCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          312 -GDFG-RVFETGPVFRAEDSY------THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       312 -~g~~-rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                       ..+. |+++++||||.|.+.      +.-...+|+.+|....-..+.++-....++++..
T Consensus       131 ~~~LPlr~~~~s~cfR~Eag~~g~~trGL~RvhQF~kvE~~~~~~~~~e~s~~~~~~~~~~  191 (311)
T d1seta2         131 YEALPLRYAGYAPAFRSEAGSFGKDVRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLEN  191 (311)
T ss_dssp             GGGCSEEEEEEEEEECCCCSCTTSSCSTTSSCSEEEEEEEEEEECSCHHHHHHHHHHHHHH
T ss_pred             hhhccceEEeecccchhhhccccccchhhhhhcccchhhhheeeccccccchhHHHHHHHH
Confidence             1232 799999999999632      3345679999997644322356666666666544

>d1h4vb2 d.104.1.1 (B:2-325) Histidyl-tRNA synthetase (HisRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Thermus thermophilus [TaxId: 274]

Probab=97.09  E-value=0.00096  Score=63.23  Aligned_cols=118  Identities=19%  Similarity=0.280  Sum_probs=75.3

Q ss_pred             hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-CCc-------ceeee-ccCCCceeecc--ChHHHHhhhcc
Q 013856          245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GGS-------AVFRL-DYKGQSACLAQ--SPQLHKQMSIC  311 (435)
Q Consensus       245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gga-------~~F~~-~~~~~~~~L~~--Spql~lq~li~  311 (435)
                      -.-.+.|..|.+.+++.|..+||.+|.||++-....  . .|.       ..|.+ +.-|+.+.|+-  .+++..- ++.
T Consensus        13 p~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~l~~~~g~~~~~~~~~~~~~~d~~g~~l~LRpD~T~~iar~-~~~   91 (324)
T d1h4vb2          13 GKELRMHQRIVATARKVLEAAGALELVTPIFEETQVFEKGVGAATDIVRKEMFTFQDRGGRSLTLRPEGTAAMVRA-YLE   91 (324)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEECCCCSEEEGGGGCCCSCC------CCSCEEECTTSCEEEECCCSHHHHHHH-HHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCeEeeCCccccHHHhhcccCCchhHHHHHHhhhhccCCcccccccccccHHHHH-HHH
Confidence            355678889999999999999999999999954331  1 111       13433 33578888882  2333332 121


Q ss_pred             CC---C---ceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          312 GD---F---GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       312 ~g---~---~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      .+   .   -|.|.+|+|||.+... ....-||+|+.+|.-..++.   -+++.++-+.+..
T Consensus        92 ~~~~~~~~p~r~~Y~g~VfR~~~~~-~gr~re~~Q~g~EiiG~~~~~ad~Eii~l~~~~l~~  152 (324)
T d1h4vb2          92 HGMKVWPQPVRLWMAGPMFRAERPQ-KGRYRQFHQVNYEALGSENPILDAEAVVLLYECLKE  152 (324)
T ss_dssp             TTGGGSSSSEEEEEEEEEECCCCC-----CCEEEEEEEEEESCCCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhchhhhheeeCcccccCccc-CCCcceeccccccccCCCChHHHHHHHHHHHHHHHH
Confidence            22   2   3999999999999853 33457999999998765432   2345555554443

>d1kmma2 d.104.1.1 (A:4-325) Histidyl-tRNA synthetase (HisRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Histidyl-tRNA synthetase (HisRS)
species: Escherichia coli [TaxId: 562]

Probab=97.06  E-value=0.00096  Score=63.05  Aligned_cols=104  Identities=21%  Similarity=0.281  Sum_probs=69.8

Q ss_pred             hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC----CCCc------ceeee-ccCCCceeeccC--hHHHH---hhh
Q 013856          246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS----EGGS------AVFRL-DYKGQSACLAQS--PQLHK---QMS  309 (435)
Q Consensus       246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~----egga------~~F~~-~~~~~~~~L~~S--pql~l---q~l  309 (435)
                      .-.+.|..|...+++.|..+||.+|.||++-...+    -|..      ..+.. +.-|+.+.|+--  +++-.   +..
T Consensus        14 ~~~~~~~~i~~~l~~~f~~~Gy~~I~tP~lE~~d~~~~~~g~~~~~~~~~~~~~~d~~g~~l~Lr~D~T~~iaR~~~~~~   93 (322)
T d1kmma2          14 GETAIWQRIEGTLKNVLGSYGYSEIRLPIVEQTPLFKRAIGEVTDVVEKEMYTFEDRNGDSLTLRPEGTAGCVRAGIEHG   93 (322)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEECBCCSEEEHHHHHHHHCTTSHHHHHTCEEEECTTSCEEEECSCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCeEeECcccccHHHhhcccCcchhhhHHHHhhhhhcccccccccccccchhhHHHHhhh
Confidence            34567788999999999999999999999964321    1111      12333 345788888732  33332   211


Q ss_pred             cc-CCCceeEEEecceecCcCCCCccccchhhheeeeccccc
Q 013856          310 IC-GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH  350 (435)
Q Consensus       310 i~-~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~  350 (435)
                      .. ..--|.|++|+|||.+.....|. -||+|+.+|.-..++
T Consensus        94 ~~~~~p~r~~y~g~v~r~~~~~~gr~-re~~Q~g~EiiG~~~  134 (322)
T d1kmma2          94 LLYNQEQRLWYIGPMFRHERPQKGRY-RQFHQLGCEVFGLQG  134 (322)
T ss_dssp             CSTTCCEEEEEEEEEECCCCCBTTBC-SEEEEEEEEEESCCS
T ss_pred             hhhhhhhhHhhcccccccCCCCCCcc-chhhhhhHHHhcccc
Confidence            11 12358999999999998644444 799999999866543

>d1nj1a3 d.104.1.1 (A:19-283) Prolyl-tRNA synthetase (ProRS) {Arhaeon (Methanothermobacter thermautotrophicus) [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Prolyl-tRNA synthetase (ProRS)
species: Arhaeon (Methanothermobacter thermautotrophicus) [TaxId: 145262]

Probab=97.03  E-value=0.00077  Score=62.31  Aligned_cols=100  Identities=19%  Similarity=0.234  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHHHHhhcCCeeeecCceeeecC-C--CC------CcceeeeccC-----CCceeeccChHH-----HHhh
Q 013856          248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-S--EG------GSAVFRLDYK-----GQSACLAQSPQL-----HKQM  308 (435)
Q Consensus       248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~--eg------ga~~F~~~~~-----~~~~~L~~Spql-----~lq~  308 (435)
                      .+++..|.+.+|+.+ ++||.||.||.|.+.. .  .+      +.+.|.+.+-     +.+++|+-+.+-     |+..
T Consensus        33 ~~i~~~i~~~~~~~~-~~G~~ev~~P~l~~~~~l~~~sgh~~~~~~e~f~~~~~~~~~~~~~~~L~pt~~~~~~~~~~~~  111 (265)
T d1nj1a3          33 FMIRKNTLKILRRIL-DRDHEEVLFPLLVPEDELAKEAIHVKGFEDEVYWVTHGGLSKLQRKLALRPTSETVMYPMFALW  111 (265)
T ss_dssp             HHHHHHHHHHHHHHH-TTTCEECCCCSEEEHHHHTTSHHHHHHTTTTCCEEEEETTEEEEEEEEECSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH-HhcCceehhhhhhhhhhhhhcccccccccccceeeeccCccccceeEEeecccccceEEeeeee
Confidence            367888999999876 5699999999886542 1  11      2346766432     456889876654     3333


Q ss_pred             hcc-CCC-ceeEEEecceecCcCCC--Cccccchhhhe-eeeccc
Q 013856          309 SIC-GDF-GRVFETGPVFRAEDSYT--HRHLCEFTGLD-VEMEIK  348 (435)
Q Consensus       309 li~-~g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE-~e~a~~  348 (435)
                      ... -.+ =|+|++|+|||+|.+.+  .-=.-|||+++ .+....
T Consensus       112 ~~SyrdLPlr~~q~~~~fR~E~~~~~Gl~R~reF~~~~d~~~~~~  156 (265)
T d1nj1a3         112 VRSHTDLPMRFYQVVNTFRYETKHTRPLIRVREITTFKEAHTIHA  156 (265)
T ss_dssp             CCBTTTCCEEEEEEEEEECCCCSCCBTTTBCSEEEEEEEEEEEES
T ss_pred             eccccccceEEEeeccceeeecccCcCCEEEEEEEEeccceeecC
Confidence            221 123 38999999999995321  11245898654 444333

>d1usya_ d.104.1.1 (A:) ATP phosphoribosyltransferase regulatory subunit HisZ {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: ATP phosphoribosyltransferase regulatory subunit HisZ
species: Thermotoga maritima [TaxId: 2336]

Probab=96.63  E-value=0.0024  Score=59.35  Aligned_cols=98  Identities=19%  Similarity=0.183  Sum_probs=62.9

Q ss_pred             HHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeec--cChHHHHhhhccCCC---ceeEEEecceecCcCCCCcc
Q 013856          260 QFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLA--QSPQLHKQMSICGDF---GRVFETGPVFRAEDSYTHRH  334 (435)
Q Consensus       260 ~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~--~Spql~lq~li~~g~---~rVfeIgp~FR~E~s~t~rH  334 (435)
                      +-..++||-+|.||.+-......+. .| .+--|+.+.||  ..+++-.- +...+.   -|+|.+|+|||.++.    +
T Consensus        14 ~~~~~~Gy~~i~tP~~E~~e~~~~~-~F-~D~~g~~l~LRpD~T~~iaR~-~~~~~~~~p~k~~Y~g~VfR~~~~----~   86 (275)
T d1usya_          14 SKATKKGFSPFFVPALEKAEEPAGN-FF-LDRKGNLFSIREDFTKTVLNH-RKRYSPDSQIKVWYADFVYRYSGS----D   86 (275)
T ss_dssp             HHHHHTTCEECCCCSEEECSSCCSS-CE-EETTSCEEEECCCHHHHHHHH-HTTCTTCCCEEEECCEEEEEEETT----E
T ss_pred             HHHHHcCCceeecCccccccccccc-ee-EcCCCCEEEECCCCcHHHHHH-HHHcCCCCCeeeeEEeeEEEeCCC----c
Confidence            3445789999999999875433222 34 45557788887  44555442 211122   299999999998763    3


Q ss_pred             ccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856          335 LCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT  364 (435)
Q Consensus       335 l~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~  364 (435)
                      .-||+|+.+|.-..++.   -|++.++-+.++.
T Consensus        87 ~re~~Q~G~EiiG~~~~~aD~Evi~l~~~~l~~  119 (275)
T d1usya_          87 LVAEYQLGLEKVPRNSLDDSLEVLEIIVESASE  119 (275)
T ss_dssp             EEEEEEEEEEEESCCSHHHHHHHHHHHHHHHHH
T ss_pred             ccceeecCceeechhhHHHHHHHHHHHHHHHHh
Confidence            56999999987553322   3566666666554

>d1jmca1 b.40.4.3 (A:183-298) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.38  E-value=0.0042  Score=50.21  Aligned_cols=96  Identities=11%  Similarity=0.140  Sum_probs=65.8

Q ss_pred             eEeccccCCCCCCEEEEEEEEeee------cc-CC-CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856           93 TEVGALNGSLKDQEVLIRGRVHTT------RP-VG-NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD  164 (435)
Q Consensus        93 ~~i~~l~~~~~g~~V~v~GrV~~~------R~-~G-~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~  164 (435)
                      +.|.+|.+..  ..++|+|||.++      |. .| .++.-++|-|.+|.|+|++-.+      ...+|-..|..|++..
T Consensus         3 ~PI~~L~p~~--~~~~I~~RV~~k~~~r~f~~~~~~g~v~~~~l~De~G~I~~t~~~~------~~~~f~~~l~~G~vy~   74 (116)
T d1jmca1           3 VPIASLTPYQ--SKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESGEIRATAFNE------QVDKFFPLIEVNKVYY   74 (116)
T ss_dssp             CCGGGCCTTC--CCCEEEEEEEEECCCEEEECSSCEEEEEEEEEECSSCEEEEEEEHH------HHHHHGGGCCTTCEEE
T ss_pred             EeHHHcCCCC--CCEEEEEEEEEeccceEEECCCCCceEEEEEEEcCCCCEEEEEchh------hhhhhHhhcccCCEEE
Confidence            4566776533  357889999653      22 22 1677788999999999999842      2345677899999999


Q ss_pred             EEEE-EecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          165 VIGV-VSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       165 V~G~-v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      |.|- |+.....-+...+.+||+...-..+.+|
T Consensus        75 i~~~~V~~~~~~y~~~~~~yei~f~~~T~I~~~  107 (116)
T d1jmca1          75 FSKGTLKIANKQFTAVKNDYEMTFNNETSVMPC  107 (116)
T ss_dssp             EECCEEEECCGGGCCCCCSEEEECCTTCEEEEC
T ss_pred             EcceEEEEccCcEeccCCcEEEEECCCcEEEEC
Confidence            9884 4433322333346799999877777766

>d1nnxa_ b.40.10.1 (A:) Hypothetical protein YgiW {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Hypothetical protein YgiW
family: Hypothetical protein YgiW
domain: Hypothetical protein YgiW
species: Escherichia coli [TaxId: 562]

Probab=95.06  E-value=0.04  Score=43.78  Aligned_cols=77  Identities=19%  Similarity=0.245  Sum_probs=57.3

Q ss_pred             cccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEecCCcc
Q 013856           97 ALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSVPDVE  175 (435)
Q Consensus        97 ~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~~~~~  175 (435)
                      ++.....+..|+|.|.|.+.-..- +   |.++|+++.|++-++..         .|. ..+++++-|.|.|.|-+-.  
T Consensus        29 ~a~~~~Ddt~V~L~G~Iv~~l~~d-~---Y~F~D~TG~I~VeId~~---------~w~g~~v~p~~kV~i~GevDk~~--   93 (106)
T d1nnxa_          29 SAKSLRDDTWVTLRGNIVERISDD-L---YVFKDASGTINVDIDHK---------RWNGVTVTPKDTVEIQGEVDKDW--   93 (106)
T ss_dssp             HHTTSCSSEEEEEEEEEEEEEETT-E---EEEEETTEEEEEECCGG---------GSTTCCCCTTSCEEEEEEEEEET--
T ss_pred             HHhhCcCCCeEEEEEEEEEEeCCc-e---EEEECCCCcEEEEEChh---------hcCCcccCCCCEEEEEEEEcCCC--
Confidence            333445678899999998765433 3   67899999999998743         133 2699999999999996422  


Q ss_pred             CCCCceeEEEEEeEEEEe
Q 013856          176 IKGATQQVEVQIKKLYCV  193 (435)
Q Consensus       176 ~~~~t~~lEI~v~~i~vl  193 (435)
                           ...||-|..|++|
T Consensus        94 -----~~~eIdV~~I~~l  106 (106)
T d1nnxa_          94 -----NSVEIDVKQIRKV  106 (106)
T ss_dssp             -----TEEEEEEEEEEEC
T ss_pred             -----CceEEEEEEEEEC
Confidence                 2478999888875

>d2pi2a1 b.40.4.3 (A:44-171) Replication protein A 32 KDa subunit (RPA32) fragment {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 32 KDa subunit (RPA32) fragment
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.72  E-value=0.1  Score=42.41  Aligned_cols=78  Identities=13%  Similarity=0.138  Sum_probs=55.2

Q ss_pred             CEEEEEEEEeeeccCCCceEEEEEEeCCe-EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeE
Q 013856          105 QEVLIRGRVHTTRPVGNKLAFVVVRERVS-TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQV  183 (435)
Q Consensus       105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~-~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~l  183 (435)
                      ..|+|-|+|.++...+.++. +.|-|++| .|.|..-.+.+.    +......+..|+.|.|.|.++.-.       +..
T Consensus        29 ~~V~iVG~V~~i~~~~t~~~-y~idDgTG~~i~v~~w~~~~~----~~~~~~~i~~g~yVrV~G~lk~f~-------~~~   96 (128)
T d2pi2a1          29 SQVTIVGIIRHAEKAPTNIV-YKIDDMTAAPMDVRQWVDTDD----TSSENTVVPPETYVKVAGHLRSFQ-------NKK   96 (128)
T ss_dssp             SEEEEEEEEEEEEECSSEEE-EEEECSSSSCEEEEEECC-----------CCCCCTTCEEEEEEEEEEET-------TEE
T ss_pred             EEEEEEEEEEEEEecCCEEE-EEEECCCCCcEEEEEECCCCC----CccccccccCCCEEEEEEEEEeeC-------CeE
Confidence            47999999999999886654 69999998 698887654321    112235799999999999997421       345


Q ss_pred             EEEEeEEEEee
Q 013856          184 EVQIKKLYCVS  194 (435)
Q Consensus       184 EI~v~~i~vls  194 (435)
                      .|.+..|..+.
T Consensus        97 ~i~~~~i~~v~  107 (128)
T d2pi2a1          97 SLVAFKIMPLE  107 (128)
T ss_dssp             EEEEEEEEECS
T ss_pred             EEEEEEEEEeC
Confidence            67777776654

>d1o7ia_ b.40.4.3 (A:) Archaeal ssDNA-binding protein {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Archaeal ssDNA-binding protein
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=93.67  E-value=0.15  Score=40.64  Aligned_cols=85  Identities=19%  Similarity=0.231  Sum_probs=58.9

Q ss_pred             EeccccCCCCCCEEEEEEEEeee---ccC----C-CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEE
Q 013856           94 EVGALNGSLKDQEVLIRGRVHTT---RPV----G-NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV  165 (435)
Q Consensus        94 ~i~~l~~~~~g~~V~v~GrV~~~---R~~----G-~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V  165 (435)
                      +|++|.+.  ...|.|.|+|.++   |..    | .+++.+.|.|++++|.+++=..          ++..|..|++|.|
T Consensus         4 kI~dL~pg--~~~v~i~~~V~~~~~~r~~~~~~g~~~v~~~~i~DeTG~i~~~~W~~----------~~~~l~~Gdvv~i   71 (115)
T d1o7ia_           4 KVGNLKPN--MESVNVTVRVLEASEARQIQTKNGVRTISEAIVGDETGRVKLTLWGK----------HAGSIKEGQVVKI   71 (115)
T ss_dssp             CGGGCCTT--CSSEEEEEEEEEECCCEEECCTTCCEEEEEEEEEETTEEEEEEEEGG----------GTTCCCTTCEEEE
T ss_pred             cHHHCCCC--CCCEEEEEEEEECCCCceeecCCCCEEEEEEEEEcCCCeEEEEEecc----------ccccCCCCCEEEE
Confidence            56667542  2358999999886   331    2 2778899999999999987632          2357899999999


Q ss_pred             EEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856          166 IGVVSVPDVEIKGATQQVEVQIKKLYCVSRA  196 (435)
Q Consensus       166 ~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~  196 (435)
                      .|.-++.      -.+.++|++.+-..+..+
T Consensus        72 ~na~v~~------~~g~~el~~~~~s~i~~~   96 (115)
T d1o7ia_          72 ENAWTTA------FKGQVQLNAGSKTKIAEA   96 (115)
T ss_dssp             EEEEEEE------ETTEEEEEECTTCEEEEC
T ss_pred             eeEEEEE------ECCeEEEEECCCeEEEEC
Confidence            8765432      125699999775555544

>d1gm5a2 b.40.4.9 (A:106-285) RecG "wedge" domain {Thermotoga maritima [TaxId: 2336]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: RecG "wedge" domain
domain: RecG "wedge" domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.68  E-value=0.072  Score=45.60  Aligned_cols=69  Identities=16%  Similarity=0.166  Sum_probs=47.0

Q ss_pred             cccCCCCCCEEEEEEEEeeecc---CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856           97 ALNGSLKDQEVLIRGRVHTTRP---VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV  171 (435)
Q Consensus        97 ~l~~~~~g~~V~v~GrV~~~R~---~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~  171 (435)
                      .+.+-..|+.|+|.|+|.+.+.   .+..+.-+.+.|+++.|.++...... ..    ... ....|..+.|.|.+..
T Consensus        53 ~i~~l~~g~~vti~g~V~~~~~~~~~~~~~~~~~v~D~~g~i~l~fFn~~~-~~----~~~-k~~~G~~v~v~Gkvk~  124 (180)
T d1gm5a2          53 KLNDLLPGEKVTTQGKIVSVETKKFQNMNILTAVLSDGLVHVPLKWFNQDY-LQ----TYL-KQLTGKEVFVTGTVKS  124 (180)
T ss_dssp             CSSCCCSSCCCEEEECCCCCEEEECSSCEEEEEEECCSSCCEEEEECSCCT-TH----HHH-HTTCSSCEEEEEEECS
T ss_pred             cccccCcceeeeeeeEEEeeccccccccceeEEEEEeccceEEEEEeCcHH-HH----HHH-hhhcCceEEEEEEEee
Confidence            3444466889999999986533   23355567888999999999885432 11    111 2346999999999854

>d2pi2e1 b.40.4.3 (E:3-117) Replication protein A 14 KDa (RPA14) subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 14 KDa (RPA14) subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.18  E-value=0.2  Score=40.00  Aligned_cols=77  Identities=17%  Similarity=0.237  Sum_probs=52.8

Q ss_pred             eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEe-CCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856           92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRE-RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS  170 (435)
Q Consensus        92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd-~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~  170 (435)
                      ++.-+-|. .+.|+.|++-|+|.+++..|+.   +.+++ ++..|+|.+....            ....+.+|.|.|+|.
T Consensus         9 RVn~~~L~-~~~Gk~V~ivGkV~~v~~~g~~---~~~~s~D~~~V~v~l~~~~------------~~~~~~~vEViG~V~   72 (115)
T d2pi2e1           9 RINAGMLA-QFIDKPVCFVGRLEKIHPTGKM---FILSDGEGKNGTIELMEPL------------DEEISGIVEVVGRVT   72 (115)
T ss_dssp             EECGGGGG-GSTTCEEEEEEEEEEECTTSSE---EEEECTTSCEEEEECSSCC------------SSCCCSEEEEEEEEC
T ss_pred             eECHHHHH-hhCCCeEEEEEEEEEEcCCCCE---EEEEcCCCCEEEEEeCCCC------------CCccCCeEEEEEEEC
Confidence            33334343 6889999999999999999843   45665 4668888876431            346788999999984


Q ss_pred             cCCccCCCCceeEEEEEeEEEEee
Q 013856          171 VPDVEIKGATQQVEVQIKKLYCVS  194 (435)
Q Consensus       171 ~~~~~~~~~t~~lEI~v~~i~vls  194 (435)
                      .          +..|.+..+.-+.
T Consensus        73 ~----------~~sI~~~~~~~fg   86 (115)
T d2pi2e1          73 A----------KATILCTSYVQFK   86 (115)
T ss_dssp             T----------TSCEEEEEEEECC
T ss_pred             C----------CCcEEEEEEEEcC
Confidence            2          2336665555543

>d1v1qa_ b.40.4.3 (A:) Primosomal replication protein N, PriB {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Primosomal replication protein N, PriB
species: Escherichia coli [TaxId: 562]

Probab=83.93  E-value=3.5  Score=31.96  Aligned_cols=40  Identities=15%  Similarity=0.253  Sum_probs=29.8

Q ss_pred             HhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeec
Q 013856          154 VRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSR  195 (435)
Q Consensus       154 ~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~  195 (435)
                      ...|..|+.|.|+|.+....  -++..+.+.|+++.|..|..
T Consensus        67 ~~~l~kG~~v~v~G~L~~~~--~~~~~~r~v~~a~~ie~l~s  106 (111)
T d1v1qa_          67 THSITVGSRITVQGFISCHK--AKNGLSKMVLHAEQIELIDS  106 (111)
T ss_dssp             GTTCCTTCEEEEEEEEEEEC--TTTTSCEEEEEEEEEEETTS
T ss_pred             HHHhcCCCEEEEEEEEEEec--ccCCCCEEEEEEEEEEEecC
Confidence            45799999999999997532  12223468899999999854

>d3ulla_ b.40.4.3 (A:) ssDNA-binding protein {Human (Homo sapiens), mitochondria [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: ssDNA-binding protein
species: Human (Homo sapiens), mitochondria [TaxId: 9606]

Probab=82.99  E-value=5.8  Score=30.46  Aligned_cols=42  Identities=7%  Similarity=0.099  Sum_probs=29.1

Q ss_pred             HHH-hcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEeEEEEe
Q 013856          152 RFV-RSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIKKLYCV  193 (435)
Q Consensus       152 ~~~-~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~~i~vl  193 (435)
                      ..+ +.|++||.|.|+|.+....-. ..|.+ ..+||.+.+|.+|
T Consensus        71 ~~~~~~l~KG~~V~V~Grl~~~~~~dkdG~~r~~~~v~a~~i~~L  115 (115)
T d3ulla_          71 DVAYQYVKKGSRIYLEGKIDYGEYMDKNNVRRQATTIIADNIIFL  115 (115)
T ss_dssp             HHHHHHCCTTCEEEEEEEEECCCEESSSSEECCCEEEEEEEEECC
T ss_pred             hhhhhhccCCCEEEEEEEEeeeeEECCCCCEEEEEEEEEEEEEeC
Confidence            444 359999999999998753311 22333 3499999998765

>d1jjcb5 d.104.1.1 (B:475-681) Phenyl-tRNA synthetase (PheRS) beta subunit, PheT, central domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Phenyl-tRNA synthetase (PheRS) beta subunit, PheT, central domain
species: Thermus thermophilus [TaxId: 274]

Probab=81.97  E-value=2  Score=36.92  Aligned_cols=107  Identities=18%  Similarity=0.156  Sum_probs=58.7

Q ss_pred             HHHHHHHHhhcCCeeeecCceeeecC----CCCCcceeee-ccCC-CceeeccCh--HHHHhhh--ccCC-C--ceeEEE
Q 013856          254 VGNIFRQFLLSENFVEIHTPKLIAGS----SEGGSAVFRL-DYKG-QSACLAQSP--QLHKQMS--ICGD-F--GRVFET  320 (435)
Q Consensus       254 i~~~~R~fl~~~gF~EV~TP~l~~~~----~egga~~F~~-~~~~-~~~~L~~Sp--ql~lq~l--i~~g-~--~rVfeI  320 (435)
                      ..+.+|++|...||.||-|-.+++..    .........+ |-.. .--+||.|-  .|-.-..  +.-| .  -|+|||
T Consensus        20 ~~~~ir~~L~~~Gf~Ev~tysf~s~~~~~~~~~~~~~i~l~NPis~e~~~lR~sLlpgLL~~~~~N~~r~~~~~~~lFEi   99 (207)
T d1jjcb5          20 KEQRLREVLSGLGFQEVYTYSFMDPEDARRFRLDPPRLLLLNPLAPEKAALRTHLFPGLVRVLKENLDLDRPERALLFEV   99 (207)
T ss_dssp             HHHHHHHHHHHHTCEECCCCSEECTTHHHHTTCCCCSCEESSCSSGGGSEECSCSHHHHHHHHHHHHHHSCCSEEEEEEE
T ss_pred             HHHHHHHHHHHCCcchhcCCCcCCHHHHHhhcCCCCcEEEeCCcchhhhhhhhhcchHHHHHHHhCcccccccceeeEee
Confidence            35668999999999999999998632    1111112333 2222 345788875  3332211  1113 2  378999


Q ss_pred             ecceecCcC------CCCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856          321 GPVFRAEDS------YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT  364 (435)
Q Consensus       321 gp~FR~E~s------~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~  364 (435)
                      |++|+....      ....+.++.|.-.-.   . ++.++..+++.++..
T Consensus       100 G~vf~~~~~~~~~~~~~g~~~~~~~~~~~~---~-df~~~Kg~v~~ll~~  145 (207)
T d1jjcb5         100 GRVFREREETHLAGLLFGEGVGLPWAKERL---S-GYFLLKGYLEALFAR  145 (207)
T ss_dssp             EEEESSSEEEEEEEEEEESCBSCTTSSCCB---C-HHHHHHHHHHHHHHH
T ss_pred             eeeeeccccccchhhhhhcccccccccccc---h-hHHHHHHHHHHHHHh
Confidence            999986542      111233333332211   1 256777777666544

>d12asa_ d.104.1.1 (A:) Asparagine synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Class II aaRS and biotin synthetases
superfamily: Class II aaRS and biotin synthetases
family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
domain: Asparagine synthetase
species: Escherichia coli [TaxId: 562]

Probab=80.90  E-value=14  Score=33.75  Aligned_cols=117  Identities=13%  Similarity=0.170  Sum_probs=83.6

Q ss_pred             HHHHHHHHHhh-----cCCeeeecCceeeecCCC-----CCcc---eeeeccC-CCceeeccChHHHHhhhcc-CCC---
Q 013856          253 QVGNIFRQFLL-----SENFVEIHTPKLIAGSSE-----GGSA---VFRLDYK-GQSACLAQSPQLHKQMSIC-GDF---  314 (435)
Q Consensus       253 ~i~~~~R~fl~-----~~gF~EV~TP~l~~~~~e-----gga~---~F~~~~~-~~~~~L~~Spql~lq~li~-~g~---  314 (435)
                      ..+..+.+||.     +.+.+.|..|.+....++     .|.+   .|.+..+ |..+-.-+|=--||.+++. -||   
T Consensus         7 ~aI~~iK~~F~~~L~~~LnL~rVsAPLfv~~~sGlNDnLnG~ErpV~F~ik~~~~~~~EiVhSLAKWKR~aL~~y~f~~g   86 (327)
T d12asa_           7 RQISFVKSHFSRQLEERLGLIEVQAPILSRVGDGTQDNLSGAEKAVQVKVKALPDAQFEVVHSLAKWKRQTLGQHDFSAG   86 (327)
T ss_dssp             HHHHHHHHHHHHHHHHHHCEEECCCCSEEETTSSCSCCTTTTCCCCEECCSSSTTCCEEECSCCTTHHHHHHHHTTCCTT
T ss_pred             HHHHHHHHHHHHHHHHHhCcEEecCCeEEcCCCCcccCCCCeeeeeEEecCCCCCCeeEEEeehHHHHHHHHHhcCCCCC
Confidence            34555555554     459999999999865432     1333   3665544 6778888999999998874 244   


Q ss_pred             ceeEEEecceec-CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856          315 GRVFETGPVFRA-EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN  370 (435)
Q Consensus       315 ~rVfeIgp~FR~-E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~  370 (435)
                      +.+|+=....|. |+.-++.|--=+-+-|||..+.. -+--++.+.+.+..|+..+.
T Consensus        87 eGlytdMnAiR~DEd~ldn~HSiyVDQWDWEkvI~~-~dR~l~~Lk~tV~~Iy~~ik  142 (327)
T d12asa_          87 EGLYTHMKALRPDEDRLSPLHSVYVDQWDWERVMGD-GERQFSTLKSTVEAIWAGIK  142 (327)
T ss_dssp             CEEEEEEEEECTTCSCCCSSCCSEEEEEEEEEECCT-TCCSHHHHHHHHHHHHHHHH
T ss_pred             ceeccCCccccCCcccCCCceeEEEcccchhhhcCc-cccCHHHHHHHHHHHHHHHH
Confidence            579999999986 55458899988999999998865 34556667777777777664